GCF_016756395.1 - 35 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_AP018365.1 (Streptomyces sp. SN-593)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	lanthipeptide-class-ii	22,672	46,121
Region 1.2	terpene,t3nrps-iterative,NRPS	216,151	316,729	High	isorenieratene	terpene
Region 1.3	T3PKS	317,963	359,036	High	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone/2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	PKS:Type III
Region 1.4	RiPP-like	651,404	662,222
Region 1.5	lanthipeptide-class-iii	726,609	749,260
Region 1.6	azole-containing-RiPP	1,036,781	1,060,759
Region 1.7	T3PKS	1,159,768	1,200,952
Region 1.8	terpene	1,216,732	1,237,760
Region 1.9	T2PKS	1,352,155	1,424,634	Medium	nenestatin	PKS
Region 1.10	T1PKS	1,429,832	1,474,994
Region 1.11	terpene-precursor	1,482,777	1,503,805
Region 1.12	thioamide-NRP,HR-T2PKS	1,747,500	1,803,059
Region 1.13	terpene	1,887,695	1,909,971	High	geosmin	terpene:Sesquiterpene
Region 1.14	lanthipeptide-class-i	1,998,428	2,024,872
Region 1.15	T1PKS	2,275,676	2,383,532	Low	lydicamycin	NRPS:Type I+PKS:Type I
Region 1.16	T2PKS	2,483,008	2,555,514	High	kinanthraquinone B/kinanthraquinone	PKS
Region 1.17	T2PKS	2,872,734	2,945,294	High	spore pigment	PKS
Region 1.18	butyrolactone	3,425,894	3,436,811
Region 1.19	T3PKS,terpene-precursor,other	3,541,570	3,597,532	High	furaquinocin B	terpene+PKS
Region 1.20	indole	3,680,693	3,701,850	Low	Azodyrecin A/Azodyrecin B/Azodyrecin C	other:other
Region 1.21	melanin	4,108,974	4,119,402
Region 1.22	lanthipeptide-class-i	4,670,936	4,696,228
Region 1.23	linaridin	5,109,216	5,129,791
Region 1.24	benzoxazole,hglE-KS	5,858,552	5,927,828	High	A33853	other:other
Region 1.25	NI-siderophore	6,500,719	6,533,241	Low	kinamycin	PKS
Region 1.26	terpene	7,083,210	7,110,057	Medium	hopene	terpene
Region 1.27	T1PKS,terpene	7,145,500	7,279,965	High	reveromycin A	PKS
Region 1.28	T1PKS	7,316,223	7,443,763	Low	akaeolide	PKS
Region 1.29	T2PKS	7,450,327	7,522,815	High	WS-5995 D/WS-5995 B/WS-5995 C/SEK 43	PKS
Region 1.30	lanthipeptide-class-ii,lanthipeptide-class-iv	7,986,833	8,018,583
Region 1.31	NRPS,T1PKS	8,044,760	8,100,439
Region 1.32	NRPS,T1PKS	8,126,442	8,210,090
Region 1.33	T1PKS,NRPS,NRPS-like	8,439,228	8,740,152	Medium	bafilomycin B1	PKS:Type I
Region 1.34	NRP-metallophore,NRPS,T1PKS,betalactone	8,753,029	8,819,825

NZ_AP018367.1 (Streptomyces sp. SN-593)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	T3PKS	1	32,347

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	lanthipeptide-class-ii	22,672	46,121
Region 1.2	terpene,t3nrps-iterative,NRPS	216,151	316,729	High	isorenieratene	terpene
Region 1.3	T3PKS	317,963	359,036	High	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone/2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	PKS:Type III
Region 1.4	RiPP-like	651,404	662,222
Region 1.5	lanthipeptide-class-iii	726,609	749,260
Region 1.6	azole-containing-RiPP	1,036,781	1,060,759
Region 1.7	T3PKS	1,159,768	1,200,952
Region 1.8	terpene	1,216,732	1,237,760
Region 1.9	T2PKS	1,352,155	1,424,634	Medium	nenestatin	PKS
Region 1.10	T1PKS	1,429,832	1,474,994
Region 1.11	terpene-precursor	1,482,777	1,503,805
Region 1.12	thioamide-NRP,HR-T2PKS	1,747,500	1,803,059
Region 1.13	terpene	1,887,695	1,909,971	High	geosmin	terpene:Sesquiterpene
Region 1.14	lanthipeptide-class-i	1,998,428	2,024,872
Region 1.15	T1PKS	2,275,676	2,383,532	Low	lydicamycin	NRPS:Type I+PKS:Type I
Region 1.16	T2PKS	2,483,008	2,555,514	High	kinanthraquinone B/kinanthraquinone	PKS
Region 1.17	T2PKS	2,872,734	2,945,294	High	spore pigment	PKS
Region 1.18	butyrolactone	3,425,894	3,436,811
Region 1.19	T3PKS,terpene-precursor,other	3,541,570	3,597,532	High	furaquinocin B	terpene+PKS
Region 1.20	indole	3,680,693	3,701,850	Low	Azodyrecin A/Azodyrecin B/Azodyrecin C	other:other
Region 1.21	melanin	4,108,974	4,119,402
Region 1.22	lanthipeptide-class-i	4,670,936	4,696,228
Region 1.23	linaridin	5,109,216	5,129,791
Region 1.24	benzoxazole,hglE-KS	5,858,552	5,927,828	High	A33853	other:other
Region 1.25	NI-siderophore	6,500,719	6,533,241	Low	kinamycin	PKS
Region 1.26	terpene	7,083,210	7,110,057	Medium	hopene	terpene
Region 1.27	T1PKS,terpene	7,145,500	7,279,965	High	reveromycin A	PKS
Region 1.28	T1PKS	7,316,223	7,443,763	Low	akaeolide	PKS
Region 1.29	T2PKS	7,450,327	7,522,815	High	WS-5995 D/WS-5995 B/WS-5995 C/SEK 43	PKS
Region 1.30	lanthipeptide-class-ii,lanthipeptide-class-iv	7,986,833	8,018,583
Region 1.31	NRPS,T1PKS	8,044,760	8,100,439
Region 1.32	NRPS,T1PKS	8,126,442	8,210,090
Region 1.33	T1PKS,NRPS,NRPS-like	8,439,228	8,740,152	Medium	bafilomycin B1	PKS:Type I
Region 1.34	NRP-metallophore,NRPS,T1PKS,betalactone	8,753,029	8,819,825
Region 3.1	T3PKS	1	32,347

No secondary metabolite regions were found in these records:: NZ_AP018366.1 (Streptomyces sp. SN-593)

Compact view

NZ_AP018365.1 - Region 1 - lanthipeptide-class-ii

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Location: 22,672 - 46,121 nt. (total: 23,450 nt) Show pHMM detection rules used

lanthipeptide-class-ii: cds(LANC_like and DUF4135)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

RVR_RS00110: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

RVR_RS00120: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS00155: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Hydrolases: esterase

RVR_RS00140: thioesterase

smcogs: SMCOG1004: thioesterase

Lyases: cyclase

RVR_RS00135: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Translocases: transporter

RVR_RS00180: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0000528.5	0.48	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0002704.2	0.47	ribosomal	archalan β	Halorussus salinus
BGC0002496.3	0.46	NRPS	serratiochelin A, serratiochelin C, serratiochelin B	Serratia plymuthica
BGC0000503.5	0.45	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0000888.5	0.44	other (other)	bacilysin	Bacillus sp. CS93
BGC0001364.3	0.43	ribosomal	cinnamycin B	Actinomadura atramentaria DSM 43919
BGC0001579.4	0.43	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000554.4	0.43	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001576.3	0.43	ribosomal	divamide A	Prochloron didemni

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0000528.5	0.48	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0002704.2	0.47	ribosomal	archalan β	Halorussus salinus
BGC0002496.3	0.46	NRPS	serratiochelin A, serratiochelin C, serratiochelin B	Serratia plymuthica
BGC0000503.5	0.45	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0000888.5	0.44	other (other)	bacilysin	Bacillus sp. CS93
BGC0001364.3	0.43	ribosomal	cinnamycin B	Actinomadura atramentaria DSM 43919
BGC0001579.4	0.43	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000554.4	0.43	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001576.3	0.43	ribosomal	divamide A	Prochloron didemni

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for RVR_RS00135

RVR_RS00125

Leader:

MENDIVRAWKAYAEPGVAGGGPLQALDVQDVVQGG

Core:

SVVASWQGSFSCCDTTLCSDCSIN

Core with dehydrations:

DhaVVADhaWQGDhaFDhaCysCysDDhbDhbLCysDhaDCysDhaIN

antiSMASH-DB 4.0 matches for RVR_RS00125

100.0%

NZ_AP018365.1:

Lanthipeptides: RVR_RS00125_lanthipeptide

1

SVVASWQGSFSCCDTTLCSDCSIN

24

SVVASWQGSFSCCDTTLCSDCSIN

1

SVVASWQGSFSCCDTTLCSDCSIN

24

79.2%

NZ_FONG01000023.1and 4 others:

NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide

Lanthipeptides: BM076_RS29665_lanthipeptide

2

VVASWQGSFSCCDTTLCSDCSIN

24

+ SWQ SFSCCDTTLCSDCSIN

2

IGGSWQWSFSCCDTTLCSDCSIN

24

54.2%

NZ_AP018365.1:

Lanthipeptides: RVR_RS00130_lanthipeptide

1

SVVASWQGSFSCCDTTLCSDCS

22

V+ SW+G+FSCCDTT+C+ C+

1

GVIGSWEGTFSCCDTTICAGCT

22

with 13 more sequence matches

Only the first 10 are displayed here.

25.0%

NZ_CP031746.1:

Lanthipeptides: DCC27_RS08165_lanthipeptide

3

VASWQGSFSCC

13

+ SWQG +CC

13

MNSWQGLLTCC

23

25.0%

NZ_MSRJ01000005.1:

Lanthipeptides: BKH06_RS03755_lanthipeptide

5

SWQGSFSCC

13

SWQ F+CC

15

SWQFIFTCC

23

24.0%

NZ_FOGI01000013.1and 1 other:

NZ_RCDD01000003.1 Lanthipeptides: CLV68_RS20325_lanthipeptide

Lanthipeptides: BMY07_RS27390_lanthipeptide

1

SVVASWQGSFSCC

13

+V W GS +CC

8

AVAFDWPGSTTCC

20

24.0%

NZ_GL882519.1:

Lanthipeptides: HMPREF9056_RS03330_lanthipeptide

3

VASWQGSFSCC

13

+ SWQ F+CC

14

MNSWQFIFTCC

24

24.0%

NZ_JAEEGA010000010.1:

Lanthipeptides: I6N95_RS15660_lanthipeptide

3

VASWQGSFSCC

13

+ SWQ F+CC

14

MNSWQWIFTCC

24

24.0%

NZ_JH792236.1and 1 other:

NZ_JH792236.1 Lanthipeptides: IIM_RS26240_lanthipeptide

Lanthipeptides: IIM_RS26245_lanthipeptide

5

SWQGSFSCC

13

SWQ F+CC

16

SWQAIFTCC

24

23.1%

NC_012470.1and 15 others:

NC_012470.1 Lanthipeptides: SZO_RS04065_lanthipeptideNZ_CABY01000005.1 Lanthipeptides: SZBHS5_RS06485_lanthipeptideNZ_CABY01000005.1 Lanthipeptides: SZBHS5_RS06490_lanthipeptideNZ_CP026729.1 Lanthipeptides: BKKJ1_RS07010_lanthipeptideNZ_CP029398.1 Lanthipeptides: DF184_RS05185_lanthipeptideNZ_CP029398.1 Lanthipeptides: DF184_RS05180_lanthipeptideNZ_CP078012.1 Lanthipeptides: KV238_RS09835_lanthipeptideNZ_CP078012.1 Lanthipeptides: KV238_RS09830_lanthipeptideNZ_CP078012.1 Lanthipeptides: KV238_RS09840_lanthipeptideNZ_JAFLMI010000009.1 Lanthipeptides: J0638_RS05350_lanthipeptideNZ_JAFLMI010000009.1 Lanthipeptides: J0638_RS05345_lanthipeptideNZ_LR738724.1 Lanthipeptides: GPW69_RS05065_lanthipeptideNZ_LR738724.1 Lanthipeptides: GPW69_RS05060_lanthipeptideNZ_VZNS01000007.1 Lanthipeptides: F6P79_RS05580_lanthipeptideNZ_VZNS01000007.1 Lanthipeptides: F6P79_RS05575_lanthipeptide

Lanthipeptides: SZO_RS04070_lanthipeptide

3

VASWQGSFSCC

13

+ SWQ F+CC

15

MNSWQFLFTCC

25

22.2%

NZ_CP044492.1and 1 other:

NZ_CP066294.2 Lanthipeptides: IGS65_RS08185_lanthipeptide

Lanthipeptides: FSA31_RS00605_lanthipeptide

5

SWQGSFSCC

13

SWQ F+CC

19

SWQHVFTCC

27

22.2%

NZ_CP046629.1and 4 others:

NZ_FNJX01000002.1 Lanthipeptides: BLR40_RS05025_lanthipeptideNZ_FNZS01000001.1 Lanthipeptides: BMX70_RS03125_lanthipeptideNZ_FOLK01000002.1 Lanthipeptides: BM262_RS05670_lanthipeptideNZ_VDNV01000006.1 Lanthipeptides: FSV44_RS08765_lanthipeptide

Lanthipeptides: GPA00_RS05740_lanthipeptide

5

SWQGSFSCC

13

SWQ F+CC

18

SWQFLFTCC

26

22.2%

NZ_CP069183.1and 4 others:

NZ_JAHBEV010000004.1 Lanthipeptides: KII98_RS01100_lanthipeptideNZ_JAHBEX010000010.1 Lanthipeptides: KII86_RS06785_lanthipeptideNZ_JAHBFD010000039.1 Lanthipeptides: KIJ16_RS07340_lanthipeptideNZ_LN890331.1 Lanthipeptides: LEKG_RS02295_lanthipeptide

Lanthipeptides: LLNCDO700_RS13730_lanthipeptide

5

SWQGSFSCC

13

SWQ F+CC

18

SWQFVFTCC

26

MIBiG 4.0 matches for RVR_RS00125

10.8%

BGC0001229.4 (SBI_06989)and 1 other:

BGC0002110.3 (QKV49894.1) Lanthipeptide: birimositide

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

13

CDTTLCS

19

C TT C+

28

CPTTKCT

34

RVR_RS00130

Leader:

MENDIVRAWKAYAEPGVAVSGPLEALDVRDVVKGG

Core:

GVIGSWEGTFSCCDTTICAGCTGF

Core with dehydrations:

GVIGDhaWEGDhbFDhaCysCysDDhbDhbICysAGCysDhbGF

antiSMASH-DB 4.0 matches for RVR_RS00130

100.0%

NZ_AP018365.1:

Lanthipeptides: RVR_RS00130_lanthipeptide

1

GVIGSWEGTFSCCDTTICAGCTGF

24

GVIGSWEGTFSCCDTTICAGCTGF

1

GVIGSWEGTFSCCDTTICAGCTGF

24

54.2%

NZ_AP018365.1:

Lanthipeptides: RVR_RS00125_lanthipeptide

1

GVIGSWEGTFSCCDTTICAGCT

22

V+ SW+G+FSCCDTT+C+ C+

1

SVVASWQGSFSCCDTTLCSDCS

22

50.0%

NZ_FONG01000023.1and 4 others:

NZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: BM076_RS29665_lanthipeptide

Lanthipeptides: BM076_RS29665_lanthipeptide

4

GSWEGTFSCCDTTICAGCT

22

GSW+ +FSCCDTT+C+ C+

4

GSWQWSFSCCDTTLCSDCS

22

with 15 more sequence matches

Only the first 10 are displayed here.

32.1%

NZ_CP048397.1:

Lanthipeptides: SSPS47_RS33185_lanthipeptide

3

IGSWEGTFSCCDTTI--CAGCT

22

+ W SCC+ T+ C GCT

4

LPDWLYPTSCCELTVVTCFGCT

25

29.2%

NZ_CP095474.1:

Lanthipeptides: MW084_RS10260_lanthipeptide

12

CCDTTICAGCTGF

24

C T+ GCTGF

7

CTSTSASTGCTGF

19

28.0%

NC_010612.1and 5 others:

NC_020133.1 Lanthipeptides: MULP_RS31530_lanthipeptideNZ_AP017635.1 Lanthipeptides: CPZ18_RS26105_lanthipeptideNZ_AP018410.1 Lanthipeptides: MPSD_RS28020_lanthipeptideNZ_CP024190.1 Lanthipeptides: CCUG20998_RS27770_lanthipeptideNZ_CP058277.1 Lanthipeptides: HXW97_RS10835_lanthipeptide

Lanthipeptides: MMAR_RS29665_lanthipeptide

6

WEGTFSCCDTTICAGCTGF

24

G C D + A C GF

3

MNGLGPCVDQALTAPCLGF

21

28.0%

NZ_CP118910.1:

Lanthipeptides: PQR73_RS04430_lanthipeptide

6

WEGTFSCCDTTICAGCTGF

24

G C D + A C GF

3

MSGLGPCVDQALTAPCLGF

21

20.8%

NZ_CP031746.1:

Lanthipeptides: DCC27_RS08165_lanthipeptide

3

IGSWEGTFSCC

13

+ SW+G +CC

13

MNSWQGLLTCC

23

20.8%

NZ_MSRJ01000005.1:

Lanthipeptides: BKH06_RS03755_lanthipeptide

3

IGSWEGTFSCC

13

+ SW+ F+CC

13

MNSWQFIFTCC

23

20.0%

NZ_CP026729.1and 4 others:

NZ_CP046629.1 Lanthipeptides: GPA00_RS05740_lanthipeptideNZ_FNJX01000002.1 Lanthipeptides: BLR40_RS05025_lanthipeptideNZ_FNZS01000001.1 Lanthipeptides: BMX70_RS03125_lanthipeptideNZ_FOLK01000002.1 Lanthipeptides: BM262_RS05670_lanthipeptide

Lanthipeptides: BKKJ1_RS07010_lanthipeptide

3

IGSWEGTFSCC

13

+ SW+ F+CC

14

MNSWQFLFTCC

24

20.0%

NZ_GL882519.1:

Lanthipeptides: HMPREF9056_RS03330_lanthipeptide

3

IGSWEGTFSCCD

14

+ SW+ F+CC

14

MNSWQFIFTCCS

25

20.0%

NZ_JAEEGA010000010.1:

Lanthipeptides: I6N95_RS15660_lanthipeptide

3

IGSWEGTFSCCD

14

+ SW+ F+CC

14

MNSWQWIFTCCS

25

20.0%

NZ_JH792236.1and 1 other:

NZ_JH792236.1 Lanthipeptides: IIM_RS26240_lanthipeptide

Lanthipeptides: IIM_RS26245_lanthipeptide

3

IGSWEGTFSCCD

14

+ SW+ F+CC

14

MNSWQAIFTCCS

25

MIBiG 4.0 matches for RVR_RS00130

15.4%

BGC0002110.3 (QKV49894.1):

Lanthipeptide: birimositide

13

CDTTICAG

20

C TT C

17

CPTTKCTS

24

10.8%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

13

CDTTIC

18

C TT C

28

CPTTKC

33

allorf_0023444_0023620

Leader:

MATRARGDPGDAGQGDPAESGRARAFLAG

Core:

PVPERRGDPRGARGPLAGRLPGCGSARPR

Core with dehydrations:

PVPERRGDPRGARGPLAGRLPGCysGDhaARPR

antiSMASH-DB 4.0 matches for allorf_0023444_0023620

100.0%

NZ_AP018365.1:

Lanthipeptides: allorf_0023444_0023620_lanthipeptide

1

PVPERRGDPRGARGPLAGRLPGCGSARPR

29

PVPERRGDPRGARGPLAGRLPGCGSARPR

1

PVPERRGDPRGARGPLAGRLPGCGSARPR

29

32.4%

NZ_CP102512.1:

Lanthipeptides: allorf_05043013_05043189_lanthipeptide

3

PERRGDPRGARGPLAGRLPGCGSARPR

29

ER+ RG AG+ PGCG+ R

1

SERQRPHRGTVAVSAGQAPGCGAVLTR

27

23.5%

NZ_CP084058.1:

Lanthipeptides: allorf_08395906_08396046_lanthipeptide

5

RRGDPRGARGPLAGRLPGC

23

RR PR P++GR+ C

11

RRPSPRSISCPISGRMLAC

29

with 3 more sequence matches

20.7%

NC_013729.1:

Lanthipeptides: KFLA_RS37060_lanthipeptide

22

GCGSARPR

29

GCGSA+P

11

GCGSAKPS

18

17.1%

NZ_QOCT01000001.1:

Lanthipeptides: DS833_RS00365_lanthipeptide

14

GPLAGRLPGCGS

25

G + GRL GC S

10

GCITGRLMGCNS

21

15.4%

NZ_AP019008.1and 2 others:

NZ_BDDX01000012.1 Lanthipeptides: FF306_RS05510_lanthipeptideNZ_JXCW01000008.1 Lanthipeptides: RZ55_RS07215_lanthipeptide

Lanthipeptides: FF306_RS00060_lanthipeptide

14

GPLAGRLPGCGS

25

G + GRL GC +

10

GCITGRLMGCNN

21

MIBiG 4.0 matches for allorf_0023444_0023620

17.2%

BGC0000580.3 (EGD17354.1)and 1 other:

BGC0000580.3 (EGD17355.1) Lasso peptide: xanthomonin II or xanthomonin I

Lasso peptide: xanthomonin II or xanthomonin I

14

GPLAGR

19

GPLAG

2

GPLAGE

7

allorf_0038677_0038835

Leader:

MCHGPPVRGRRLSRTPAVPAA

Core:

ASRTPVPAAPRCRVPVSATGGHRCAGRAVTW

Core with dehydrations:

ADhaRDhbPVPAAPRCysRVPVDhaADhbGGHRCysAGRAVDhbW

antiSMASH-DB 4.0 matches for allorf_0038677_0038835

100.0%

NZ_AP018365.1:

Lanthipeptides: allorf_0038677_0038835_lanthipeptide

1

ASRTPVPAAPRCRVPVSATGGHRCAGRAVTW

31

ASRTPVPAAPRCRVPVSATGGHRCAGRAVTW

1

ASRTPVPAAPRCRVPVSATGGHRCAGRAVTW

31

25.0%

NZ_JAPTYM010000001.1:

Lanthipeptides: allorf_00301141_00301338_lanthipeptide

6

VPAAPRCRVPVS----ATGGHRCAG

26

V A RCR PV+ TG HR +G

13

VRAGWRCREPVNLSGHGTGRHRTSG

37

20.5%

NZ_QRDO01000002.1:

Lanthipeptides: allorf_1072387_1072554_lanthipeptide

7

PAAPRCRVPVS

17

P A RCRVP S

6

PKAARCRVPQS

16

with 3 more sequence matches

19.4%

NZ_CP011130.1and 4 others:

NZ_CP023465.1 Lanthipeptides: CNO08_RS25790_lanthipeptideNZ_CP076103.1 Lanthipeptides: KME82_RS10615_lanthipeptideNZ_CP094357.1 Lanthipeptides: IEQ11_RS10290_lanthipeptideNZ_KQ061217.1 Lanthipeptides: WN54_RS27350_lanthipeptide

Lanthipeptides: LC55x_RS27745_lanthipeptide

12

CRVPVSATGGHRCAGR

27

C S+ GG C+G

8

CNCSTSSNGGCLCSGE

23

17.9%

NZ_BMLN01000009.1:

Lanthipeptides: allorf_125527_125676_lanthipeptide

3

RTPVPAAPRCRVPVS

17

R P P+AP R+ +S

24

RNPSPSAPYNRLTIS

38

14.0%

NZ_CP068102.1and 1 other:

NZ_CP068102.1 Lanthipeptides: allorf_1176709_1176894_lanthipeptide

Lanthipeptides: allorf_1176709_1176894_lanthipeptide

13

RVPVSATGGHRC

24

R P+SA G RC

27

RSPISAFGSSRC

38

MIBiG 4.0 matches for allorf_0038677_0038835

9.8%

BGC0002120.3 (NQE92413.1):

Lanthipeptide: nocathioamide A

7

PAAPRC

12

PAAP C

35

PAAPAC

40

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (5):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.90 out of 26.85

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.51 out of 30.22

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.73 out of 32.93

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 20.70 out of 36.53

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

RVR_RS00125 - Class II

Cleavage pHMM score: -2.20

RODEO score: 0

Monoisotopic mass: 2370.0 Da

Molecular weight: 2371.6 Da

Number of bridges: 4

Additional modifications: Lac

Alternative weights: (assuming N unmodified Ser/Thr residues); 2389.6 Da N = 1; 2407.6 Da N = 2; 2425.7 Da N = 3; 2443.7 Da N = 4

RVR_RS00130 - Class II

Cleavage pHMM score: -3.80

RODEO score: 0

Monoisotopic mass: 2306.0 Da

Molecular weight: 2307.6 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 2325.6 Da N = 1; 2343.6 Da N = 2

allorf_0023444_0023620 - Class II

Cleavage pHMM score: -5.20

RODEO score: 0

Monoisotopic mass: 2989.6 Da

Molecular weight: 2991.4 Da

Number of bridges: 1

allorf_0038677_0038835 - Class II

Cleavage pHMM score: -6.20

RODEO score: 0

Monoisotopic mass: 3096.7 Da

Molecular weight: 3098.6 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3116.6 Da N = 1; 3134.6 Da N = 2; 3152.6 Da N = 3

TFBS definitions

Regulator	Description

NZ_AP018365.1 - Region 2 - NRPS,t3nrps-iterative,terpene

Download region GenBank file

Download region SVG

Location: 216,151 - 316,729 nt. (total: 100,579 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)
t3nrps-iterative: (AMP-binding and PP-binding and (DUF98 or Orn_Arg_deC_N or Orn_DAP_Arg_deC) and not ATP-grasp)
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

RVR_RS01075: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

RVR_RS01190: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS01275: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

RVR_RS01325: dehydrogenase

smcogs: SMCOG1072: dehydrogenase

Transferases: methyltransferase

RVR_RS01055: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: dehalogenase hydrolase

RVR_RS01090: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

RVR_RS01260: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

RVR_RS01320: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

Lyases: decarboxylase

RVR_RS01250: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase synthase synthetase

RVR_RS01080: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

RVR_RS01200: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

RVR_RS01235: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.87	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.86	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002135.2	0.86	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001128.4	0.84	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.82	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.82	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.82	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.82	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001261.3	0.74	NRPS	AM-toxin	Alternaria alternata
BGC0001641.4	0.73	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000664.5	0.82	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000649.3	0.77	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.75	terpene	isorenieratene	Streptomyces argillaceus
BGC0001833.4	0.74	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.74	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002135.2	0.74	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001128.4	0.73	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.73	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.73	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.73	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
tetraterpene	C40 carotenoid		C40	unknown	unknown

Genes with terpene domains:

RVR_RS01050: Lycopene_cycl

Domain 1 (6 - 383): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

RVR_RS01070: PT_phytoene_like

Domain 1 (16 - 319): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → squalene; FPP → diapophytoene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

RVR_RS01080: PT_FPPS_like

Domain 1 (136 - 414): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.16 out of 18.46

Confidence: medium

Additional weak hits (16):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.12 out of 25.88

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.30 out of 21.84

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.87 out of 30.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.83 out of 29.38

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.08 out of 19.26

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.36 out of 21.84

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.52 out of 29.25

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 13.91 out of 21.55

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.11 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.22 out of 29.38

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.12 out of 29.65

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 18.86 out of 27.04

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.26 out of 29.38

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.84 out of 21.84

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.29 out of 29.38

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.86 out of 19.52

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

Terpene

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 216150 - 316729:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X - Thr - Tyr - Pro - Phe - NMe-Tyr - Val)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 239278 - 316729:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X - Thr - Tyr - Pro - Phe - NMe-Tyr - Val)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS01200: X - Thr - Tyr - Pro - Phe - Tyr - Val

Search NORINE for peptide: strict or relaxed

AMP-binding (469..870): X

nrpys: Orn, Lys, Arg

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LDHTFDASWNQMEAAAGGELNFYGPSECTVNTVA
Nearest Stachelhaus code(s):: OH-Orn DAQEGGLVDK (59% 8Å match); Lys DADDAGTVDK (53% 8Å match)
Stachelhaus code match:: 60% (weak)

AMP-binding (1540..1943): Thr

nrpys: Thr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
Small clusters prediction:: thr (Thr)
Single AA prediction:: thr (Thr)

Stachelhaus prediction details:

Stachelhaus sequence:: LTTHFDFSVWEGNQVFGGEVNMYGITETTVHVTY
Nearest Stachelhaus code(s):: Thr DFWNVGMVHK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2604..3002): Tyr

nrpys: Tyr

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: tyr (Tyr)

Stachelhaus prediction details:

Stachelhaus sequence:: LNQTFDASCDQAGGALGGELNFYGPSECTVDSVH
Nearest Stachelhaus code(s):: Lys DADDAGTVDK (59% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (3666..4053): Pro

nrpys: Pro

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
Small clusters prediction:: pro (Pro)
Single AA prediction:: pro (Pro)

Stachelhaus prediction details:

Stachelhaus sequence:: LWHTFDVSVQESFAAQAGEHNHYGPAETHVITAY
Nearest Stachelhaus code(s):: Pro DVQFAAHVVK (91% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (4706..5075): Phe

nrpys: Phe

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Unpolar aromatic ring (Phe, Trp)
Single AA prediction:: phe (Phe)

Stachelhaus prediction details:

Stachelhaus sequence:: LEQAFDASFWDGTLVVAGEINAYGPTETTVCATM
Nearest Stachelhaus code(s):: Phe DAWTVAAVCK (88% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (5730..6098): Tyr

nrpys: Tyr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Polar aromatic ring (Tyr, bOH-Tyr)
Single AA prediction:: tyr (Tyr)

Stachelhaus prediction details:

Stachelhaus sequence:: LGQAFDASVSETTVVVAGEINAYGPTETTVCATM
Nearest Stachelhaus code(s):: Tyr DASTVAAVCK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (7164..7546): Val

nrpys: Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: val (Val)

Stachelhaus prediction details:

Stachelhaus sequence:: LSPSFDLSTYEVWLWTGGDVNGYGPTEATTLATR
Nearest Stachelhaus code(s):: Val DAYWWGGTFK (85% 8Å match)
Stachelhaus code match:: 80% (moderate)

Link to PARAS substrate predictor

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
RpoN	Regulator of nitrogen assimilation and virulence

NZ_AP018365.1 - Region 3 - T3PKS

Download region GenBank file

Download region SVG

Location: 317,963 - 359,036 nt. (total: 41,074 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase electron transfer oxidase oxidoreductase

RVR_RS01455: oxidoreductase

smcogs: SMCOG1161: oxidoreductase

RVR_RS01460: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

RVR_RS01500: flavodoxin

smcogs: SMCOG1134: flavodoxin

RVR_RS01520: pyruvate oxidase/decarboxylase

smcogs: SMCOG1055: pyruvate oxidase/decarboxylase

RVR_RS01525: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase methyltransferase

RVR_RS01435: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

RVR_RS01450: Methylation

MITE: MITE0000155Methylation (identity: 70.60%)
smcogs: SMCOG1150: isoprenylcysteine carboxyl methyltransferase

Hydrolases: esterase

RVR_RS38510: putative esterase

smcogs: SMCOG1104: putative esterase

Lyases: dehydratase

RVR_RS01365: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase

RVR_RS01360: polyprenol-monophosphomannose synthase ppm1

smcogs: SMCOG1123: polyprenol-monophosphomannose synthase ppm1

RVR_RS01445: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.82	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001831.3	0.53	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0000528.5	0.46	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001964.2	0.45	PKS	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium
BGC0002362.3	0.45	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0000249.5	0.44	PKS	nogalamycin	Streptomyces nogalater
BGC0001647.3	0.43	PKS	lagunapyrone A, lagunapyrone B, lagunapyrone C	Streptomyces sp. MP131-18
BGC0002315.2	0.41	PKS	accramycin A	Streptomyces sp.
BGC0000786.3	0.41	saccharide	O-antigen	Edwardsiella ictaluri 93-146

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.82	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001831.3	0.53	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0000528.5	0.46	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001964.2	0.45	PKS	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium
BGC0002362.3	0.45	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0000249.5	0.44	PKS	nogalamycin	Streptomyces nogalater
BGC0001647.3	0.43	PKS	lagunapyrone A, lagunapyrone B, lagunapyrone C	Streptomyces sp. MP131-18
BGC0002315.2	0.41	PKS	accramycin A	Streptomyces sp.
BGC0000786.3	0.41	saccharide	O-antigen	Edwardsiella ictaluri 93-146

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.80 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.32 out of 23.79

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 28.03 out of 36.53

Confidence: medium

Additional weak hits (13):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.77 out of 26.06

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.60 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.23 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.02 out of 21.55

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.03 out of 29.38

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.45 out of 26.33

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.91 out of 19.26

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.11 out of 21.55

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.15 out of 29.65

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.00 out of 28.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.20 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.25 out of 33.14

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.41 out of 36.53

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

TFBS Finder

TFBS definitions

Regulator	Description
DmdR1	Iron(II)-dependent repressor
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 4 - RiPP-like

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Location: 651,404 - 662,222 nt. (total: 10,819 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001882.3	0.22	PKS	chrysoxanthone A, chrysoxanthone B, chrysoxanthone C	Penicillium rubens Wisconsin 54-1255
BGC0002805.2	0.20	other (other)	Azodyrecin A, Azodyrecin B, Azodyrecin C	Streptomyces mirabilis strain P8-A
BGC0001755.5	0.20	PKS	reedsmycin A, reedsmycin B, reedsmycin C, reedsmycin D, reedsmycin E	Streptomyces sp.
BGC0000495.5	0.20	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0000266.5	0.19	PKS	collinomycin	Streptomyces collinus
BGC0002288.2	0.19	NRPS	ashimide A, ashimide B	Streptomyces sp. NA03103

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001882.3	0.22	PKS	chrysoxanthone A, chrysoxanthone B, chrysoxanthone C	Penicillium rubens Wisconsin 54-1255
BGC0002805.2	0.20	other (other)	Azodyrecin A, Azodyrecin B, Azodyrecin C	Streptomyces mirabilis strain P8-A
BGC0001755.5	0.20	PKS	reedsmycin A, reedsmycin B, reedsmycin C, reedsmycin D, reedsmycin E	Streptomyces sp.
BGC0000495.5	0.20	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0000266.5	0.19	PKS	collinomycin	Streptomyces collinus
BGC0002288.2	0.19	NRPS	ashimide A, ashimide B	Streptomyces sp. NA03103

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.07 out of 30.12

Confidence: medium

Additional weak hits (5):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.44 out of 30.22

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.29 out of 23.43

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.02 out of 27.18

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.23 out of 28.19

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.13 out of 35.63

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
OsdR	Development and stress management regulator

NZ_AP018365.1 - Region 5 - lanthipeptide-class-iii

Download region GenBank file

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Location: 726,609 - 749,260 nt. (total: 22,652 nt) Show pHMM detection rules used

lanthipeptide-class-iii: (micKC and not PKS_KS)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: acetyltransferase glycosyltransferase transferase

RVR_RS03145: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs: SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

RVR_RS03150: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

RVR_RS03155: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000496.5	0.49	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000551.5	0.49	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.48	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0002111.3	0.48	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000553.3	0.47	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0000518.3	0.45	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002701.2	0.44	ribosomal	paenithipeptin	Paenibacillus thiaminolyticus
BGC0001521.3	0.40	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0000885.3	0.39	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000582.4	0.38	ribosomal	cypemycin	Streptomyces sp. OH-4156

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000496.5	0.49	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000551.5	0.49	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.48	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0002111.3	0.48	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000553.3	0.47	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998
BGC0000518.3	0.45	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0002701.2	0.44	ribosomal	paenithipeptin	Paenibacillus thiaminolyticus
BGC0001521.3	0.40	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0000885.3	0.39	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000582.4	0.38	ribosomal	cypemycin	Streptomyces sp. OH-4156

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for RVR_RS03130

RVR_RS03120

Leader:

MADAVDPTNEDTTAETENEVEAHSEALDLQEMGVSGLE

Core:

APGSTVSLAACA

Core with dehydrations:

APGDhaDhbVDhaLAACysA

antiSMASH-DB 4.0 matches for RVR_RS03120

100.0%

NZ_AP018365.1:

Lanthipeptides: RVR_RS03120_lanthipeptide

1

APGSTVSLAACA

12

APGSTVSLAACA

1

APGSTVSLAACA

12

30.0%

NZ_CP084585.1:

Lanthipeptides: LFM56_RS02720_lanthipeptide

3

GSTVSLAAC

11

GST+S+A C

3

GSTISIALC

11

25.9%

NZ_CP016076.1:

Lanthipeptides: UA74_RS09535_lanthipeptide

3

GSTVSLAAC

11

G TVS+AAC

7

GITVSIAAC

15

with 1 more sequence matches

25.8%

NZ_CP048405.1and 3 others:

NZ_CP048405.1 Lanthipeptides: GXW83_RS22630_lanthipeptideNZ_CP048405.1 Lanthipeptides: GXW83_RS22630_lanthipeptideNZ_CP048405.1 Lanthipeptides: GXW83_RS22630_lanthipeptide

Lanthipeptides: GXW83_RS22630_lanthipeptide

3

GSTVSLAACA

12

S+VSLAACA

22

SSSVSLAACA

31

RVR_RS03125

Leader:

MADPVDPASSAVPDDEQTAPEAADGESEVEAHVANPLDLQEMGVQTSFADNV

Core:

IGSTSATSLISCC

Core with dehydrations:

IGDhaDhbDhaADhbDhaLIDhaCysCys

antiSMASH-DB 4.0 matches for RVR_RS03125

100.0%

NZ_AP018365.1:

Lanthipeptides: RVR_RS03125_lanthipeptide

1

IGSTSATSLISCC

13

IGSTSATSLISCC

1

IGSTSATSLISCC

13

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

Additional weak hits (7):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.73 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.11 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.83 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.01 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.64 out of 30.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.32 out of 30.25

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.37 out of 18.57

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

RVR_RS03120 - Class III

Cleavage pHMM score: 2.10

RODEO score: 0

Monoisotopic mass: 992.5 Da

Molecular weight: 993.1 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 1011.1 Da N = 1; 1029.2 Da N = 2

RVR_RS03125 - Class III

Cleavage pHMM score: 3.70

RODEO score: 0

Monoisotopic mass: 1133.6 Da

Molecular weight: 1134.3 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 1152.3 Da N = 1; 1170.3 Da N = 2; 1188.4 Da N = 3; 1206.4 Da N = 4

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production

NZ_AP018365.1 - Region 6 - azole-containing-RiPP

Download region GenBank file

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Location: 1,036,781 - 1,060,759 nt. (total: 23,979 nt) Show pHMM detection rules used

azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Azole RiPPs

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

RVR_RS04455: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Hydrolases: esterase

RVR_RS04400: putative esterase

smcogs: SMCOG1104: putative esterase

Lyases: cyclase

RVR_RS04435: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002698.2	0.54	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000565.5	0.52	ribosomal	goadsporin	Streptomyces sp. TP-A0584
BGC0001555.4	0.51	ribosomal	colicin V	Escherichia coli chi7122
BGC0000551.5	0.51	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000513.3	0.50	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0002115.3	0.47	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0002699.2	0.46	ribosomal	nostolysamide A, nostolysamide B	Nostoc punctiforme PCC 73102
BGC0000483.5	0.45	ribosomal	aeruginosamide B, aeruginosamide C	Microcystis aeruginosa PCC 9432
BGC0001229.4	0.45	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000605.5	0.44	ribosomal	GE37468	Streptomyces sp. ATCC 55365

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002698.2	0.54	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000565.5	0.52	ribosomal	goadsporin	Streptomyces sp. TP-A0584
BGC0001555.4	0.51	ribosomal	colicin V	Escherichia coli chi7122
BGC0000551.5	0.51	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000513.3	0.50	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0002115.3	0.47	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0002699.2	0.46	ribosomal	nostolysamide A, nostolysamide B	Nostoc punctiforme PCC 73102
BGC0000483.5	0.45	ribosomal	aeruginosamide B, aeruginosamide C	Microcystis aeruginosa PCC 9432
BGC0001229.4	0.45	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000605.5	0.44	ribosomal	GE37468	Streptomyces sp. ATCC 55365

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (7):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.82 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.28 out of 31.73

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.66 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.23 out of 21.55

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.34 out of 26.12

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.92 out of 26.85

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.60 out of 21.84

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

RREFinder

TFBS Finder

Azole RiPPs

RRE predictions

: RRE type: Goadsporin_CD_RRE; Location: 7 - 104; Score: 77.7; RRE type: NHLP_CD_RRE; Location: 8 - 101; Score: 67.2; RRE type: Cyanobactin_D_RRE; Location: 8 - 86; Score: 57.4

TFBS definitions

Regulator	Description

Core peptide predictions

No core peptides found.

NZ_AP018365.1 - Region 7 - T3PKS

Download region GenBank file

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Location: 1,159,768 - 1,200,952 nt. (total: 41,185 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

RVR_RS04890: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

RVR_RS04895: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

RVR_RS04940: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

RVR_RS04985: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

RVR_RS05035: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

RVR_RS05050: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

RVR_RS05055: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

Hydrolases: deacetylase

RVR_RS04925: acetylornithine deacetylase

smcogs: SMCOG1247: acetylornithine deacetylase

Ligases: synthase

RVR_RS04990: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001454.5	0.85	other (other)	germicidin	Streptomyces argillaceus
BGC0000244.4	0.46	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0001905.4	0.45	PKS	violapyrone B	Streptomyces somaliensis
BGC0000908.3	0.40	other (other)	melanin	Streptomyces avermitilis
BGC0001441.5	0.39	other (other)	belactosin A, belactosin C	Streptomyces sp.
BGC0000252.5	0.39	PKS	nonactin	Streptomyces griseus subsp. griseus
BGC0002282.2	0.39	other (other)	formycin A	Streptomyces kaniharaensis
BGC0001927.4	0.39	other (other)	A-94964	Streptomyces sp.
BGC0000916.5	0.38	other (other)	molybdenum cofactor	Staphylococcus carnosus
BGC0001940.3	0.38	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001454.5	0.85	other (other)	germicidin	Streptomyces argillaceus
BGC0000244.4	0.46	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0001905.4	0.45	PKS	violapyrone B	Streptomyces somaliensis
BGC0000908.3	0.40	other (other)	melanin	Streptomyces avermitilis
BGC0001441.5	0.39	other (other)	belactosin A, belactosin C	Streptomyces sp.
BGC0000252.5	0.39	PKS	nonactin	Streptomyces griseus subsp. griseus
BGC0002282.2	0.39	other (other)	formycin A	Streptomyces kaniharaensis
BGC0001927.4	0.39	other (other)	A-94964	Streptomyces sp.
BGC0000916.5	0.38	other (other)	molybdenum cofactor	Staphylococcus carnosus
BGC0001940.3	0.38	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.78 out of 25.88

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 17.98 out of 23.79

Confidence: medium

Additional weak hits (6):

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.16 out of 26.06

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.99 out of 25.31

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.52 out of 32.74

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.73 out of 30.98

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.30 out of 26.85

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
PsrA	Oleic acid responsive regulator
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 8 - terpene

Download region GenBank file

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Location: 1,216,732 - 1,237,760 nt. (total: 21,029 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

RVR_RS05145: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: methyltransferase

RVR_RS05180: methyltransferase

smcogs: SMCOG1089: methyltransferase

Lyases: cyclase

RVR_RS05175: Terpene synthase/cyclase metal-binding domain protein

smcogs: SMCOG1052: Terpene synthase/cyclase metal-binding domain protein

Isomerases: racemase

RVR_RS05135: mandelate racemase/muconate lactonizing enzyme

smcogs: SMCOG1268: mandelate racemase/muconate lactonizing enzyme

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000658.3	0.80	terpene	2-methylisoborneol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000659.3	0.80	terpene	2-methylisoborneol	Saccharopolyspora erythraea NRRL 2338
BGC0000657.5	0.64	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0000894.4	0.46	other (other)	citrinin	Monascus aurantiacus
BGC0002493.3	0.41	NRPS	parabactin	Paracoccus denitrificans PD1222
BGC0001928.2	0.40	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0001219.3	0.40	PKS	shanorellin	Chaetomium globosum CBS 148.51
BGC0000678.5	0.40	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001605.3	0.39	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002138.2	0.38	PKS	fuelimycin A, fuelimicin B, fuelimicin C	Streptomyces albireticuli NRRL B-1670

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000658.3	0.80	terpene	2-methylisoborneol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000659.3	0.80	terpene	2-methylisoborneol	Saccharopolyspora erythraea NRRL 2338
BGC0000657.5	0.64	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0000894.4	0.46	other (other)	citrinin	Monascus aurantiacus
BGC0002493.3	0.41	NRPS	parabactin	Paracoccus denitrificans PD1222
BGC0001928.2	0.40	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0001219.3	0.40	PKS	shanorellin	Chaetomium globosum CBS 148.51
BGC0000678.5	0.40	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001605.3	0.39	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002138.2	0.38	PKS	fuelimycin A, fuelimicin B, fuelimicin C	Streptomyces albireticuli NRRL B-1670

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
monoterpene		2-methylisoborneol	C11	C1-C6	OH
monoterpene		2-methylenebornane	C11	C1-C6	none

Genes with terpene domains:

RVR_RS05175: T1TS

Domain 1 (12 - 336): Type 1 terpene synthase

Subtype: 2-Methylisoborneol synthase type

Reactions:: 2-MeGPP → 2-methylisoborneol; 2-MeGPP → 2-methylenebornane

Transcription Factor Binding Sites

Binding sites found:

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 21.40 out of 23.05

Confidence: strong

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

Additional weak hits (3):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.87 out of 32.74

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.85 out of 30.97

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 16.96 out of 22.40

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
2-MeGPP	2-methylgeranyl diphosphate

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production

NZ_AP018365.1 - Region 9 - T2PKS

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Location: 1,352,155 - 1,424,634 nt. (total: 72,480 nt) Show pHMM detection rules used

T2PKS: (t2ks and t2clf)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

RVR_RS05785: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS05800: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS05820: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS05825: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS05860: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS05890: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS05900: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS05905: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: methyltransferase sulfotransferase

RVR_RS05810: Sulfotransferase domain

extras: Sulfotransfer_4: Sulfotransferase domain

RVR_RS05970: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

Hydrolases: amidase back translocase dehalogenase hydrolase

RVR_RS05775: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

RVR_RS05840: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

RVR_RS05940: amidase

smcogs: SMCOG1105: amidase

RVR_RS05985: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: cyclase lyase

RVR_RS05870: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

RVR_RS05895: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

RVR_RS05950: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

RVR_RS05975: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

RVR_RS05990: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: synthase

RVR_RS05875: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS05880: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transport

RVR_RS05745: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.83	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0000234.5	0.77	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001723.5	0.76	PKS	oviedomycin	Streptomyces antibioticus
BGC0002458.3	0.66	NRPS	alazopeptin	Streptacidiphilus griseoplanus
BGC0002047.2	0.64	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0000272.3	0.61	PKS	spore pigment	Streptomyces collinus
BGC0000253.4	0.60	PKS	oviedomycin	Streptomyces antibioticus
BGC0000235.5	0.59	PKS	kiamycin	Streptomyces sp. W007
BGC0002276.2	0.58	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002504.2	0.57	PKS	nocardiopsistin A, nocardiopsistin B, nocardiopsistin C	Nocardiopsis sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.83	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0000234.5	0.77	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001723.5	0.76	PKS	oviedomycin	Streptomyces antibioticus
BGC0002458.3	0.66	NRPS	alazopeptin	Streptacidiphilus griseoplanus
BGC0002047.2	0.64	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0000272.3	0.61	PKS	spore pigment	Streptomyces collinus
BGC0000253.4	0.60	PKS	oviedomycin	Streptomyces antibioticus
BGC0000235.5	0.59	PKS	kiamycin	Streptomyces sp. W007
BGC0002276.2	0.58	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002504.2	0.57	PKS	nocardiopsistin A, nocardiopsistin B, nocardiopsistin C	Nocardiopsis sp.

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 17.91 out of 23.79

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.90 out of 28.19

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.28 out of 23.05

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.09 out of 30.12

Confidence: medium

Additional weak hits (9):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.79 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.82 out of 27.78

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.60 out of 25.88

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.46 out of 25.75

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.49 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.82 out of 28.19

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.63 out of 29.65

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.19 out of 33.14

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

Type II PKS

TFBS Finder

Type II PKS gene cluster prediction details

Cluster section:: 1352154 to 1424634
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:: 8|9 (Score: 694.9; E-value: 6.4e-212)
Product class(es):: angucycline
Product molecular weight(s):: acetyl-CoA_8: 446 Da
acetyl-CoA_9: 488 Da

RVR_RS05780: DIMER (Score: 340.1; E-value: 2.3e-104)
RVR_RS05785: OXY (Score: 315.4; E-value: 1.7e-96)
RVR_RS05800: KR (Score: 143.0; E-value: 3e-44)
RVR_RS05820: OXY (Score: 468.1; E-value: 8.3e-143)
RVR_RS05825: OXY (Score: 495.9; E-value: 3.1e-151)
RVR_RS05860: OXY (Score: 532.2; E-value: 2.9e-162)
RVR_RS05870: CYC C4-C17/C2-C19 (Score: 197.9; E-value: 3.7e-61)
RVR_RS05875: KS (Score: 770.9; E-value: 6.5e-235)
RVR_RS05880: CLF 8|9 (Score: 694.9; E-value: 6.4e-212)
RVR_RS05885: ACP (Score: 122.2; E-value: 1.6e-38)
RVR_RS05890: KR C9 (Score: 465.0; E-value: 1.5e-142)
RVR_RS05895: CYC C7-C12 (Score: 471.0; E-value: 3.1e-144)
RVR_RS05900: OXY (Score: 561.4; E-value: 4.1e-171)
RVR_RS05905: OXY (Score: 565.1; E-value: 3.2e-172)
RVR_RS05970: MET (Score: 289.3; E-value: 8.9e-89)

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
IolR	Regulator of the inositol catabolism
OsdR	Development and stress management regulator
ZuR variant 1	Zinc-responsive repressor

NZ_AP018365.1 - Region 10 - T1PKS

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Location: 1,429,832 - 1,474,994 nt. (total: 45,163 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

RVR_RS06205: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

RVR_RS06210: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

RVR_RS06225: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: methyltransferase transferase

RVR_RS06175: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

RVR_RS06235: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: esterase

RVR_RS06160: putative esterase

smcogs: SMCOG1104: putative esterase

Isomerases: racemase

RVR_RS06195: mandelate racemase/muconate lactonizing enzyme

smcogs: SMCOG1268: mandelate racemase/muconate lactonizing enzyme

Ligases: ligase synthase

RVR_RS06065: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

RVR_RS06165: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS06170: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS06220: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001535.3	0.68	other (other)	branched-chain fatty acids	Streptomyces filamentosus
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.63	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001275.3	0.60	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	0.60	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001273.3	0.60	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.60	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002276.2	0.59	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001161.5	0.53	PKS	1-heptadecene	Moorea bouillonii PNG
BGC0001162.3	0.53	PKS	1-heptadecene	Moorea producens JHB

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001535.3	0.68	other (other)	branched-chain fatty acids	Streptomyces filamentosus
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.63	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001275.3	0.60	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	0.60	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001273.3	0.60	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.60	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002276.2	0.59	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001161.5	0.53	PKS	1-heptadecene	Moorea bouillonii PNG
BGC0001162.3	0.53	PKS	1-heptadecene	Moorea producens JHB

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.73 out of 23.79

Confidence: medium

Additional weak hits (13):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.56 out of 28.14

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.91 out of 29.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.60 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.74 out of 28.14

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.83 out of 30.25

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.56 out of 21.84

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 13.91 out of 21.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.90 out of 29.25

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.84 out of 21.84

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.13 out of 30.97

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.08 out of 32.93

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.51 out of 26.85

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.73 out of 35.63

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 12, location 1429831 - 1474994:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS06165: mmal

PKS_AT (775..1068): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 66.7%; Ethylmalonyl-CoA: 62.5%; Methoxymalonyl-CoA: 58.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 111.1
Methoxymalonyl-CoA: 100.8
Ethylmalonyl-CoA: 93.6
Malonyl-CoA: 69.4
Propionyl-CoA: 61.7
trans-1,2-CPDA: 54.0
2-Methylbutyryl-CoA: 43.5
Acetyl-CoA: 42.8
fatty_acid: 41.5
Isobutyryl-CoA: 41.4
CHC-CoA: 32.6
inactive: 25.9
3-Methylbutyryl-CoA: 14.3
Benzoyl-CoA: 13.1

RVR_RS06170: AHBA

CAL_domain (46..520): AHBA

minowa: AHBA

Prediction, score:

AHBA: 18.0
fatty_acid: 17.0
NH2: 14.8
Acetyl-CoA: 1.5
shikimic_acid: 0.0

RVR_RS06220: X

AMP-binding (32..483): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: NRQLITGMVCQAVGASGGAANGYGLTECTAPCAS
Nearest Stachelhaus code(s):: Ac or MalAc TTIMAGGGPK (32% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 11 - terpene-precursor

Download region GenBank file

Download region SVG

Location: 1,482,777 - 1,503,805 nt. (total: 21,029 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: methyltransferase

RVR_RS06320: methyltransferase

smcogs: SMCOG1089: methyltransferase

Ligases: synthetase

RVR_RS06330: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002007.2	0.39	terpene	atolypene A, atolypene B	Amycolatopsis tolypomycina
BGC0000646.5	0.38	terpene	β-carotein	uncultured bacterium
BGC0000641.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC416
BGC0000642.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000639.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000638.3	0.37	terpene	carotenoid	Pantoea ananatis
BGC0000665.5	0.37	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0000640.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000635.3	0.36	terpene	carotenoid	Paracoccus sp. N81106
BGC0001456.3	0.36	terpene	isorenieratene	Streptomyces argillaceus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002007.2	0.39	terpene	atolypene A, atolypene B	Amycolatopsis tolypomycina
BGC0000646.5	0.38	terpene	β-carotein	uncultured bacterium
BGC0000641.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC416
BGC0000642.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000639.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000638.3	0.37	terpene	carotenoid	Pantoea ananatis
BGC0000665.5	0.37	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0000640.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0000635.3	0.36	terpene	carotenoid	Paracoccus sp. N81106
BGC0001456.3	0.36	terpene	isorenieratene	Streptomyces argillaceus

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

RVR_RS06330: PT_FPPS_like

Domain 1 (46 - 341): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 17.99 out of 23.79

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.40 out of 19.26

Confidence: medium

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84

Confidence: medium

Additional weak hits (17):

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.51 out of 21.84

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.36 out of 21.84

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.54 out of 31.73

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.07 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.60 out of 21.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.54 out of 26.06

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.32 out of 18.57

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.32 out of 26.33

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 18.82 out of 27.55

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.41 out of 18.57

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.19 out of 29.65

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.95 out of 33.14

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.00 out of 30.98

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.16 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.97 out of 24.78

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
CRP	Cyclic AMP receptor protein
IolR	Regulator of the inositol catabolism
MexT	Global virulence regulator

NZ_AP018365.1 - Region 12 - HR-T2PKS,thioamide-NRP

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Location: 1,747,500 - 1,803,059 nt. (total: 55,560 nt) Show pHMM detection rules used

thioamide-NRP: (ATP-grasp and AMP-binding and PP-binding and (DUF98 or Orn_Arg_deC_N or Orn_DAP_Arg_deC))
HR-T2PKS: (hr-t2pks-ksa and (t2fas or APE_KS2 or ketoacyl-synt))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase electron transfer

RVR_RS07345: flavodoxin

smcogs: SMCOG1134: flavodoxin

RVR_RS07425: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: halogenase methyltransferase

RVR_RS07325: methyltransferase

smcogs: SMCOG1089: methyltransferase

RVR_RS07365: halogenase

smcogs: SMCOG1119: halogenase

Hydrolases: esterase

RVR_RS07350: thioesterase superfamily protein

smcogs: SMCOG1144: thioesterase superfamily protein

RVR_RS07535: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

smcogs: SMCOG1283: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

Lyases: decarboxylase

RVR_RS07450: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase synthase

RVR_RS07375: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS07380: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS07385: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS07435: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

RVR_RS07460: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001250.4	0.54	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.54	NRPS	epichloenin A	Epichloe festucae
BGC0002135.2	0.53	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.53	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.52	NRPS	HC-toxin	Alternaria jesenskae
BGC0001261.3	0.52	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.51	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002286.3	0.51	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.51	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002164.2	0.50	NRPS	peramine	Epichloe festucae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001261.3	0.60	NRPS	AM-toxin	Alternaria alternata
BGC0001249.5	0.59	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002286.3	0.59	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.59	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002164.2	0.58	NRPS	peramine	Epichloe festucae

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.46 out of 20.47

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.56 out of 23.79

Confidence: medium

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.87 out of 29.72

Confidence: medium

Additional weak hits (11):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.34 out of 26.85

Confidence: weak

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.67 out of 29.72

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.03 out of 30.97

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.42 out of 29.38

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.81 out of 29.25

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.70 out of 21.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 18.43 out of 29.25

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.43 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.49 out of 21.55

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 19.33 out of 30.97

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.48 out of 29.65

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

TFBS Finder

NRPS/PKS substrate predictions

RVR_RS07375: X

AMP-binding (22..423): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
Single AA prediction:: ala (Ala)

Stachelhaus prediction details:

Stachelhaus sequence:: YHVFFDLAMFDCFSLFCGEENLYGPTELTISCSA
Nearest Stachelhaus code(s):: Gly DLFFLCLLSK (82% 8Å match); foGly DLFFLCLIAK (71% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
NtrC	Nitrogen regulatory protein C
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 13 - terpene

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Location: 1,887,695 - 1,909,971 nt. (total: 22,277 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

RVR_RS07910: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

RVR_RS07940: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

RVR_RS07945: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

Transferases: phosphorylase

RVR_RS07930: thiamine-phosphate pyrophosphorylase

smcogs: SMCOG1280: thiamine-phosphate pyrophosphorylase

Lyases: cyclase

RVR_RS07915: Terpene synthase/cyclase metal-binding domain protein

smcogs: SMCOG1052: Terpene synthase/cyclase metal-binding domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.81	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0001746.3	0.75	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0002345.2	0.40	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0001521.3	0.38	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0001782.3	0.36	other (other)	spiroindimicin A, spiroindimicin B, spiroindimicin C, spiroindimicin D, indimicin A, indimicin B, indimicin C, indimicin D, indimicin E, lynamicin A, lynamicin D, lynamicin F, lynamicin G	Streptomyces sp. SCSIO 03032
BGC0002294.3	0.35	other (other)	streptozotocin	Streptomyces achromogenes subsp. streptozoticus
BGC0000934.4	0.34	other (phenazine)	5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G	Kitasatospora sp. HKI 714
BGC0002578.2	0.34	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0000648.3	0.34	terpene	carotenoid	Myxococcus xanthus
BGC0001302.5	0.34	other (other)	lomofungin	Streptomyces lomondensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.81	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0001746.3	0.75	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0002345.2	0.40	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0001521.3	0.38	NRPS	auriculamide	Herpetosiphon aurantiacus DSM 785
BGC0001782.3	0.36	other (other)	spiroindimicin A, spiroindimicin B, spiroindimicin C, spiroindimicin D, indimicin A, indimicin B, indimicin C, indimicin D, indimicin E, lynamicin A, lynamicin D, lynamicin F, lynamicin G	Streptomyces sp. SCSIO 03032
BGC0002294.3	0.35	other (other)	streptozotocin	Streptomyces achromogenes subsp. streptozoticus
BGC0000934.4	0.34	other (phenazine)	5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G	Kitasatospora sp. HKI 714
BGC0002578.2	0.34	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0000648.3	0.34	terpene	carotenoid	Myxococcus xanthus
BGC0001302.5	0.34	other (other)	lomofungin	Streptomyces lomondensis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene		germacradienol	C15	C1-C10	OH
sesquiterpene		geosmin	C12	C1-C10	OH

Genes with terpene domains:

RVR_RS07915: T1TS + T1TS

Domain 1 (2 - 326): Type 1 terpene synthase

Subtype: Geosmin synthase, N terminal domain

Reactions:: FPP → germacradienol

Domain 2 (328 - 706): Type 1 terpene synthase

Subtype: Geosmin synthase, C terminal domain

Reactions:: germacradienol → geosmin

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.68 out of 20.47

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.53 out of 23.79

Confidence: medium

Additional weak hits (2):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.24 out of 35.63

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 14 - lanthipeptide-class-i

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Location: 1,998,428 - 2,024,872 nt. (total: 26,445 nt) Show pHMM detection rules used

lanthipeptide-class-i: (((Lant_dehydr_N or Lant_dehydr_C) and cds(LANC_like and not Pkinase)) and not (YcaO or TIGR03604))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Lyases: cyclase dehydratase

RVR_RS08445: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

RVR_RS08450: Lanthionine synthetase C family protein

smcogs: SMCOG1140: Lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002576.2	0.75	ribosomal	mechercharmycin	Thermoactinomyces sp.
BGC0001289.5	0.54	ribosomal	penisin	Paenibacillus ehimensis
BGC0002635.2	0.44	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa
BGC0002298.2	0.41	ribosomal	lassomycin-like peptide	Sanguibacter keddieii DSM 10542
BGC0001210.5	0.40	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000565.5	0.40	ribosomal	goadsporin	Streptomyces sp. TP-A0584
BGC0000285.5	0.39	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0002289.2	0.38	ribosomal	Leepeptin	Streptomyces leeuwenhoekii
BGC0002116.3	0.38	ribosomal	darobactin A	Photorhabdus khanii HGB 1456
BGC0002668.2	0.37	ribosomal	cesin A	Clostridium estertheticum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002576.2	0.75	ribosomal	mechercharmycin	Thermoactinomyces sp.
BGC0001289.5	0.54	ribosomal	penisin	Paenibacillus ehimensis
BGC0002635.2	0.44	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa
BGC0002298.2	0.41	ribosomal	lassomycin-like peptide	Sanguibacter keddieii DSM 10542
BGC0001210.5	0.40	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000565.5	0.40	ribosomal	goadsporin	Streptomyces sp. TP-A0584
BGC0000285.5	0.39	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0002289.2	0.38	ribosomal	Leepeptin	Streptomyces leeuwenhoekii
BGC0002116.3	0.38	ribosomal	darobactin A	Photorhabdus khanii HGB 1456
BGC0002668.2	0.37	ribosomal	cesin A	Clostridium estertheticum

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for RVR_RS08445

RVR_RS08440

Leader:

MTQKVSTSITRTEEQPPSDGFDLNVSLLEVSDAASL

Core:

TSLTDDNCGSTCGACTTNVA

Core with dehydrations:

DhbDhaLDhbDDNCysGDhaDhbCysGACysDhbDhbNVA

antiSMASH-DB 4.0 matches for RVR_RS08440

100.0%

NZ_AP018365.1:

Lanthipeptides: RVR_RS08440_lanthipeptide

1

TSLTDDNCGSTCGACTTNVA

20

TSLTDDNCGSTCGACTTNVA

1

TSLTDDNCGSTCGACTTNVA

20

90.0%

NC_021177.1and 1 other:

NZ_BMUG01000006.1 Lanthipeptides: IE264_RS18330_lanthipeptide

Lanthipeptides: SFUL_RS28885_lanthipeptide

3

LTDDNCGSTCGACTTNVA

20

LTDDNCGSTCGACTTNVA

1

LTDDNCGSTCGACTTNVA

18

85.0%

NZ_BMSI01000021.1and 1 other:

NZ_JAPTYM010000001.1 Lanthipeptides: O1M07_RS07535_lanthipeptide

Lanthipeptides: IE189_RS36010_lanthipeptide

3

LTDDNCGSTCGACTTNVA

20

LTDD CGSTCGACTTNVA

1

LTDDGCGSTCGACTTNVA

18

with 139 more sequence matches

Only the first 10 are displayed here.

81.8%

NZ_AQRK01000088.1and 27 others:

NZ_BMVQ01000014.1 Lanthipeptides: IE283_RS30975_lanthipeptideNZ_CP019724.1 Lanthipeptides: B1H29_RS19645_lanthipeptideNZ_CP019724.1 Lanthipeptides: B1H29_RS08000_lanthipeptideNZ_CP022438.1 Lanthipeptides: CGZ69_RS15030_lanthipeptideNZ_CP022438.1 Lanthipeptides: CGZ69_RS15030_lanthipeptideNZ_CP023202.1 Lanthipeptides: SXIN_RS04650_lanthipeptideNZ_CP023700.1 Lanthipeptides: CP969_RS17265_lanthipeptideNZ_CP023702.1 Lanthipeptides: CP967_RS19640_lanthipeptideNZ_CP033073.1 Lanthipeptides: D9753_RS20300_lanthipeptideNZ_CP063808.1 Lanthipeptides: IOD14_RS42650_lanthipeptideNZ_CP071872.1 Lanthipeptides: J4032_RS33705_lanthipeptideNZ_CP071872.1 Lanthipeptides: J4032_RS33705_lanthipeptideNZ_CP075691.1 Lanthipeptides: KKZ08_RS16460_lanthipeptideNZ_CP082362.1 Lanthipeptides: K4G22_RS18080_lanthipeptideNZ_CP094676.1 Lanthipeptides: L6J92_RS33095_lanthipeptideNZ_CP101138.1 Lanthipeptides: M6G08_RS35600_lanthipeptideNZ_CP117709.1 Lanthipeptides: PSQ21_RS13565_lanthipeptideNZ_CP117866.1 Lanthipeptides: PBV52_RS22590_lanthipeptideNZ_JAFIQY010000056.1 Lanthipeptides: JXZ78_RS36930_lanthipeptideNZ_JAJDST010000050.1 Lanthipeptides: LJC81_RS33260_lanthipeptideNZ_JAJDST010000050.1 Lanthipeptides: LJC81_RS33260_lanthipeptideNZ_JH993790.1 Lanthipeptides: STRVIR_RS0119395_lanthipeptideNZ_KB890926.1 Lanthipeptides: B053_RS0114140_lanthipeptideNZ_KB891987.1 Lanthipeptides: B079_RS0100320_lanthipeptideNZ_KB912961.1 Lanthipeptides: B065_RS0117615_lanthipeptideNZ_KQ947985.1 Lanthipeptides: AQI70_RS05650_lanthipeptideNZ_LIPF01000016.1 Lanthipeptides: AMK11_RS35705_lanthipeptide

Lanthipeptides: YUW_RS13695_lanthipeptide

2

SLTDDNCGSTCGACTTNVA

20

+LTDDNCGSTCGACTTNVA

4

NLTDDNCGSTCGACTTNVA

22

80.0%

NZ_BBVA01000002.1and 7 others:

NZ_CP030865.1 Lanthipeptides: MicB006_RS27820_lanthipeptideNZ_FMCS01000017.1 Lanthipeptides: GA0070214_RS30700_lanthipeptideNZ_JAGPXW010000015.1 Lanthipeptides: KBX71_RS18490_lanthipeptideNZ_JALJRJ010000030.1 Lanthipeptides: OC439_RS27920_lanthipeptideNZ_LT594324.1 Lanthipeptides: GA0070621_RS04875_lanthipeptideNZ_LT607410.1 Lanthipeptides: GA0074696_RS20405_lanthipeptideNZ_LT607753.1 Lanthipeptides: GA0070614_RS02740_lanthipeptide

Lanthipeptides: A4R25_RS30565_lanthipeptide

2

SLTDDNCGSTCGACTTNVA

20

+LTDD CGSTC ACTTNVA

1

NLTDDGCGSTCTACTTNVA

19

80.0%

NZ_CP018870.1and 1 other:

NZ_CP030862.1 Lanthipeptides: C0216_RS09890_lanthipeptide

Lanthipeptides: BSL84_RS27525_lanthipeptide

2

SLTDDNCGSTCGACTTNV

19

+LTDDNCGSTCGACTT V

2

TLTDDNCGSTCGACTTGV

19

77.3%

NZ_BCMN01000021.1:

Lanthipeptides: AV140_RS32375_lanthipeptide

2

SLTDDNCGSTCGACTTNVA

20

+LTDD CGSTCGACTTNVA

4

NLTDDGCGSTCGACTTNVA

22

77.3%

NZ_CP028834.1and 1 other:

NZ_CP074380.1 Lanthipeptides: KGS77_RS25025_lanthipeptide

Lanthipeptides: DBP13_RS26755_lanthipeptide

2

SLTDDNCGSTCGACTTNVA

20

SLTDD CG TCGACTTNVA

4

SLTDDGCGETCGACTTNVA

22

77.3%

NZ_CP070379.1and 1 other:

NZ_LFBV01000012.1 Lanthipeptides: AB852_RS38205_lanthipeptide

Lanthipeptides: JVE63_RS15825_lanthipeptide

2

SLTDDNCGSTCGACTTNVA

20

+LTDDNCG+TCGACTTNVA

4

NLTDDNCGTTCGACTTNVA

22

75.0%

NZ_CP023701.1:

Lanthipeptides: CP968_RS31915_lanthipeptide

2

SLTDDNCGSTCGACTTNV

19

+LTDD CGSTCGACTT V

1

NLTDDGCGSTCGACTTGV

18

75.0%

NZ_CP026498.1and 1 other:

NZ_KK853997.1 Lanthipeptides: KCH_RS39425_lanthipeptide

Lanthipeptides: C2142_RS04990_lanthipeptide

3

LTDDNCGSTCGACTTNV

19

LTDD CGSTCGACTT V

2

LTDDGCGSTCGACTTGV

18

75.0%

NZ_FZOF01000021.1:

Lanthipeptides: CHF15_RS30750_lanthipeptide

3

LTDDNCGSTCGACTTNVA

20

LTDD CGSTCGACTT A

1

LTDDGCGSTCGACTTGAA

18

75.0%

NZ_JAINUL010000001.1:

Lanthipeptides: K7B10_RS07615_lanthipeptide

2

SLTDDNCGSTCGACTTNV

19

+LTDD CGSTCGACTT V

2

TLTDDGCGSTCGACTTGV

19

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.52 out of 23.79

Confidence: medium

Additional weak hits (3):

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.74 out of 29.72

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.68 out of 23.43

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.60 out of 26.85

Confidence: weak

Lanthipeptides

RREFinder

TFBS Finder

Core peptide predictions

RVR_RS08440 - Class I

Cleavage pHMM score: -7.70

RODEO score: 20

Monoisotopic mass: 1806.7 Da

Molecular weight: 1807.9 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 1825.9 Da N = 1; 1843.9 Da N = 2; 1862.0 Da N = 3; 1880.0 Da N = 4

RRE predictions

: RRE type: Lanthipeptide_LanB_RRE; Location: 161 - 253; Score: 63.3

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism

NZ_AP018365.1 - Region 15 - T1PKS

Download region GenBank file

Download region SVG

Location: 2,275,676 - 2,383,532 nt. (total: 107,857 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

RVR_RS09375: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

RVR_RS09415: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

RVR_RS09440: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

RVR_RS09485: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

RVR_RS09645: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS09725: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: glycosyltransferase

RVR_RS09390: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

Hydrolases: dehalogenase esterase hydrolase

RVR_RS09425: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

RVR_RS09550: thioesterase superfamily protein

smcogs: SMCOG1144: thioesterase superfamily protein

RVR_RS09555: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

Lyases: decarboxylase

RVR_RS09450: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Ligases: ligase synthase

RVR_RS09455: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS09560: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS09640: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS09660: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

RVR_RS09665: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS37450: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.57	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001164.3	0.53	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001268.4	0.50	NRPS, PKS	fusarin C	Fusarium fujikuroi
BGC0002171.2	0.36	NRPS, PKS	pyrophen, campyrone B	Aspergillus niger ATCC 1015
BGC0002275.2	0.36	NRPS, PKS	pyrophen, campyrone B	Aspergillus niger CBS 101883
BGC0001163.3	0.35	PKS	1-heptadecene	Moorea producens 3L
BGC0002434.2	0.31	NRPS, PKS	clifednamide D, clifednamide E, clifednamide F, clifednamide G, clifednamide H, clifednamide I, clifednamide J	Kitasatospora sp.
BGC0002240.3	0.30	PKS	BAB, BAA	Metarhizium anisopliae
BGC0001556.5	0.30	NRPS, PKS	combamide	Streptomyces sp.
BGC0001298.4	0.30	PKS	4-Z-annimycin, 4-E-annimycin	Streptomyces calvus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.76	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.76	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.75	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001276.3	0.67	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001160.5	0.65	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.65	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002154.2	0.63	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001268.4	0.62	NRPS, PKS	fusarin C	Fusarium fujikuroi

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.73 out of 23.79

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 24.14 out of 29.65

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.89 out of 26.85

Confidence: medium

Additional weak hits (48):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.11 out of 26.33

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.83 out of 31.73

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.26 out of 20.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.86 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.43 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.66 out of 21.55

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.66 out of 31.73

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.14 out of 20.97

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.02 out of 30.25

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.88 out of 30.97

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.72 out of 31.73

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.15 out of 18.57

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.06 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.45 out of 26.06

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 15.90 out of 29.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.68 out of 27.78

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.82 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.92 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.67 out of 29.38

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.58 out of 26.85

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.58 out of 26.85

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.21 out of 30.97

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.01 out of 21.55

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.13 out of 18.57

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.68 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.67 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.45 out of 26.06

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.49 out of 20.97

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 16.68 out of 36.54

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.65 out of 26.12

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.49 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.81 out of 32.74

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.88 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.60 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.80 out of 28.19

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.10 out of 27.04

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 18.94 out of 27.55

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.96 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.62 out of 29.65

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 14.91 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.47 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.03 out of 28.19

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.46 out of 23.43

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.22 out of 27.04

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.88 out of 32.93

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.73 out of 28.19

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.40 out of 33.14

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 23.68 out of 30.98

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 17, location 2275675 - 2383532:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - Me-redmal) + (ccmal - Me-ccmal - redmal - redmal)
Non-colinear ordering:: RVR_RS09640 + RVR_RS37450

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 19, location 2309704 - 2383532:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - Me-redmal) + (ccmal - Me-ccmal - redmal - redmal)
Non-colinear ordering:: RVR_RS09640 + RVR_RS37450

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS09455: mal

PKS_AT (547..856): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 110.6
Methoxymalonyl-CoA: 58.8
inactive: 50.9
Methylmalonyl-CoA: 49.0
Propionyl-CoA: 33.7
CHC-CoA: 29.6
2-Methylbutyryl-CoA: 21.5
trans-1,2-CPDA: 12.3
Acetyl-CoA: 12.2
fatty_acid: 11.3
Isobutyryl-CoA: 9.0
3-Methylbutyryl-CoA: 1.0
Ethylmalonyl-CoA: 0.2
Benzoyl-CoA: 0.0

RVR_RS09560: X

AMP-binding (8..410): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: TGTPLAGFAFWGLLAYGASLQVYGMTELSPSTTL
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

RVR_RS37450: mal - mmal - mal - mal

PKS_AT (573..876): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 87.5%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 181.5
inactive: 105.3
Methoxymalonyl-CoA: 59.9
Methylmalonyl-CoA: 53.3
Benzoyl-CoA: 43.2
Isobutyryl-CoA: 33.7
Ethylmalonyl-CoA: 25.4
fatty_acid: 19.7
CHC-CoA: 19.0
Acetyl-CoA: 15.3
Propionyl-CoA: 13.7
trans-1,2-CPDA: 9.0
2-Methylbutyryl-CoA: 7.0
3-Methylbutyryl-CoA: 5.5

PKS_AT (2362..2662): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 196.3
Ethylmalonyl-CoA: 192.4
Methoxymalonyl-CoA: 152.3
trans-1,2-CPDA: 119.4
2-Methylbutyryl-CoA: 112.7
Propionyl-CoA: 102.3
Malonyl-CoA: 88.3
CHC-CoA: 63.5
Isobutyryl-CoA: 63.3
Benzoyl-CoA: 61.5
Acetyl-CoA: 46.8
fatty_acid: 45.8
inactive: 38.9
3-Methylbutyryl-CoA: 19.9

PKS_AT (4121..4424): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 83.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 177.3
inactive: 101.1
Methoxymalonyl-CoA: 60.3
Methylmalonyl-CoA: 52.0
Benzoyl-CoA: 37.6
Isobutyryl-CoA: 36.0
Ethylmalonyl-CoA: 32.1
CHC-CoA: 25.1
Propionyl-CoA: 19.3
fatty_acid: 17.7
Acetyl-CoA: 16.4
trans-1,2-CPDA: 11.3
3-Methylbutyryl-CoA: 8.1
2-Methylbutyryl-CoA: 4.0

PKS_AT (6245..6548): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 87.5%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 186.4
inactive: 108.1
Methoxymalonyl-CoA: 60.4
Methylmalonyl-CoA: 53.2
Benzoyl-CoA: 40.5
Isobutyryl-CoA: 36.1
Ethylmalonyl-CoA: 32.6
CHC-CoA: 23.1
fatty_acid: 19.0
Propionyl-CoA: 18.0
Acetyl-CoA: 15.2
trans-1,2-CPDA: 9.1
2-Methylbutyryl-CoA: 4.4
3-Methylbutyryl-CoA: 0.0

RVR_RS09640: mmal - mmal

PKS_AT (553..851): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Malonyl-CoA: 91.7%; Methoxymalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 208.9
Ethylmalonyl-CoA: 202.8
Methoxymalonyl-CoA: 162.7
2-Methylbutyryl-CoA: 132.3
trans-1,2-CPDA: 111.4
Malonyl-CoA: 104.1
Propionyl-CoA: 96.6
CHC-CoA: 84.7
Isobutyryl-CoA: 74.4
Benzoyl-CoA: 60.3
3-Methylbutyryl-CoA: 47.2
Acetyl-CoA: 28.4
inactive: 27.0
fatty_acid: 20.1

PKS_AT (1575..1875): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 196.1
Ethylmalonyl-CoA: 186.6
Methoxymalonyl-CoA: 152.6
2-Methylbutyryl-CoA: 114.6
trans-1,2-CPDA: 112.8
Propionyl-CoA: 104.1
Malonyl-CoA: 90.2
CHC-CoA: 69.6
Isobutyryl-CoA: 67.4
Benzoyl-CoA: 56.4
Acetyl-CoA: 45.3
fatty_acid: 44.6
inactive: 39.2
3-Methylbutyryl-CoA: 22.0

RVR_RS09665: X

AMP-binding (22..440): X

nrpys: Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: NVLLHDMGLLAMAGIVGGEHPAYGLAENTSAVTA
Nearest Stachelhaus code(s):: Leu DALLIGAIAK (47% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
IolR	Regulator of the inositol catabolism
LexA variant 1	Repressor of DNA damage response
RutR	Regulator of the pyrimidine and purine metabolism

NZ_AP018365.1 - Region 16 - T2PKS

Download region GenBank file

Download region SVG

Location: 2,483,008 - 2,555,514 nt. (total: 72,507 nt) Show pHMM detection rules used

T2PKS: (t2ks and t2clf)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidase oxidoreductase oxygenase

RVR_RS10230: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS10280: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS10315: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

RVR_RS10375: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS10385: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS10390: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS10410: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

RVR_RS10425: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

RVR_RS10430: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS10445: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

RVR_RS10475: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

Transferases: aminotransferase glycosyltransferase methyltransferase transferase

RVR_RS10400: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

RVR_RS10435: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

RVR_RS10440: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

RVR_RS10450: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs: SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

RVR_RS10465: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs: SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

Lyases: cyclase dehydratase

RVR_RS10355: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

RVR_RS10380: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

RVR_RS10455: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

RVR_RS10460: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

RVR_RS10495: L-carnitine dehydratase/bile acid-inducible

smcogs: SMCOG1189: L-carnitine dehydratase/bile acid-inducible

Ligases: synthase

RVR_RS10360: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS10365: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transporter

RVR_RS10240: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

RVR_RS10310: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002383.3	1.00	PKS	kinanthraquinone B, kinanthraquinone	Streptomyces sp. SN-593
BGC0000231.5	0.84	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0000234.5	0.78	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000278.3	0.72	PKS	urdamycin	Streptomyces fradiae
BGC0001723.5	0.66	PKS	oviedomycin	Streptomyces antibioticus
BGC0002047.2	0.66	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0000235.5	0.64	PKS	kiamycin	Streptomyces sp. W007
BGC0002276.2	0.63	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002477.3	0.61	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072
BGC0001895.4	0.60	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002383.3	1.00	PKS	kinanthraquinone B, kinanthraquinone	Streptomyces sp. SN-593
BGC0000231.5	0.84	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0000234.5	0.78	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000278.3	0.72	PKS	urdamycin	Streptomyces fradiae
BGC0001723.5	0.66	PKS	oviedomycin	Streptomyces antibioticus
BGC0002047.2	0.66	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0000235.5	0.64	PKS	kiamycin	Streptomyces sp. W007
BGC0002276.2	0.63	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0002477.3	0.61	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072
BGC0001895.4	0.60	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.12 out of 29.72

Confidence: medium

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 22.98 out of 27.55

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 19.52 out of 19.52

Confidence: strong

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 24.85 out of 30.12

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

Additional weak hits (25):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.92 out of 30.22

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.98 out of 21.55

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.11 out of 26.33

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.31 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.96 out of 27.78

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.82 out of 27.55

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.14 out of 26.12

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.39 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.73 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.34 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.17 out of 26.06

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 16.57 out of 36.54

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.70 out of 26.06

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.02 out of 18.57

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.37 out of 19.26

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.83 out of 25.88

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.53 out of 31.73

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.04 out of 30.25

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.08 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.08 out of 21.55

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.09 out of 28.19

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.67 out of 32.93

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.91 out of 32.93

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 27.04

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.18 out of 28.19

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

Type II PKS

TFBS Finder

Type II PKS gene cluster prediction details

Cluster section:: 2483007 to 2555514
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:: 8|9 (Score: 713.4; E-value: 1.6e-217)
Product class(es):: angucycline
Product molecular weight(s):: acetyl-CoA_8: 595 Da
acetyl-CoA_9: 637 Da

RVR_RS10230: KR (Score: 179.2; E-value: 2.9e-55)
RVR_RS10280: KR (Score: 164.5; E-value: 8.4e-51)
RVR_RS10355: CYC C4-C17/C2-C19 (Score: 199.4; E-value: 1.2e-61)
RVR_RS10360: KS (Score: 791.8; E-value: 3.1e-241)
RVR_RS10365: CLF 8|9 (Score: 713.4; E-value: 1.6e-217)
RVR_RS10370: ACP (Score: 139.4; E-value: 6.7e-44)
RVR_RS10375: KR C9 (Score: 493.3; E-value: 3.4e-151)
RVR_RS10380: CYC C7-C12 (Score: 502.1; E-value: 1.1e-153)
RVR_RS10385: OXY (Score: 574.1; E-value: 5.8e-175)
RVR_RS10390: OXY (Score: 593.7; E-value: 6.3e-181)
RVR_RS10400: GT (Score: 399.9; E-value: 3.7e-122)
RVR_RS10430: OXY (Score: 479.4; E-value: 3.1e-146)
RVR_RS10435: MET (Score: 282.0; E-value: 1.5e-86)
RVR_RS10440: MET (Score: 273.3; E-value: 6.3e-84)

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
AfsR	Pleiotropic regulatory for antibiotic production
GnfM	Regulator of nitrogen-fixation genes
NtrC	Nitrogen regulatory protein C
OsdR	Development and stress management regulator

NZ_AP018365.1 - Region 17 - T2PKS

Download region GenBank file

Download region SVG

Location: 2,872,734 - 2,945,294 nt. (total: 72,561 nt) Show pHMM detection rules used

T2PKS: (t2ks and t2clf)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

RVR_RS11790: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

RVR_RS11815: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

RVR_RS11915: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: carboxylase methyltransferase transferase

RVR_RS11800: acetyl-CoA carboxylase, carboxyl transferase,

smcogs: SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

RVR_RS11805: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

RVR_RS11955: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

Lyases: cyclase

RVR_RS11945: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

RVR_RS11950: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

RVR_RS12060: diguanylate cyclase

smcogs: SMCOG1025: diguanylate cyclase

Isomerases: mutase

RVR_RS11990: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Ligases: synthase

RVR_RS11810: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

RVR_RS11930: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS11935: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transporter

RVR_RS11875: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000271.5	0.74	PKS	spore pigment	Streptomyces avermitilis
BGC0000272.3	0.73	PKS	spore pigment	Streptomyces collinus
BGC0000215.5	0.65	PKS	curamycin	Streptomyces cyaneus
BGC0000231.5	0.61	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002284.3	0.60	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000234.5	0.58	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001197.5	0.57	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001273.3	0.56	PKS	asperlactone	Aspergillus ochraceus
BGC0001513.3	0.55	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000275.4	0.55	PKS	tetracenomycin C	Streptomyces glaucescens

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000271.5	0.74	PKS	spore pigment	Streptomyces avermitilis
BGC0000272.3	0.73	PKS	spore pigment	Streptomyces collinus
BGC0000215.5	0.65	PKS	curamycin	Streptomyces cyaneus
BGC0000231.5	0.61	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002284.3	0.60	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000234.5	0.58	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001197.5	0.57	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001273.3	0.56	PKS	asperlactone	Aspergillus ochraceus
BGC0001513.3	0.55	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000275.4	0.55	PKS	tetracenomycin C	Streptomyces glaucescens

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.91 out of 26.85

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.39 out of 19.26

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 28.65 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 27.15 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 28.65 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 28.65 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.19 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.19 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 26.65 out of 30.11

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.04 out of 23.79

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.05 out of 27.04

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.18 out of 27.04

Confidence: medium

Additional weak hits (21):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.09 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.03 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.51 out of 27.78

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.84 out of 25.75

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.10 out of 21.55

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.14 out of 20.97

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.01 out of 21.55

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.17 out of 21.55

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.62 out of 23.43

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.57 out of 30.11

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.30 out of 30.11

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.21 out of 36.53

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.29 out of 31.73

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.93 out of 33.14

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.23 out of 20.01

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.60 out of 30.11

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.81 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.45 out of 30.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.09 out of 28.19

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.30 out of 36.53

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

Type II PKS

TFBS Finder

Type II PKS gene cluster prediction details

Cluster section:: 2872733 to 2945294
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Product class(es):: pentangular polyphenol
tetracenomycin

RVR_RS11915: OXY (Score: 298.8; E-value: 1.9e-91)
RVR_RS11925: CYC C5-C18 (Score: 213.3; E-value: 2.1e-66)
RVR_RS11930: KS (Score: 712.0; E-value: 5e-217)
RVR_RS11935: CLF (Score: 530.9; E-value: 4.5e-162)
RVR_RS11940: ACP (Score: 64.7; E-value: 1.4e-20)
RVR_RS11945: CYC C9-C14 (Score: 251.2; E-value: 6.5e-78)
RVR_RS11950: CYC C4-C21/C2-C23|C2-C19 (Score: 140.9; E-value: 3e-44)
RVR_RS11955: MET C6|C8 (Score: 506.2; E-value: 8e-155)
RVR_RS12020: OXY (Score: 59.3; E-value: 8e-19)

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CelR	Cellobiose uptake repressor
DasR	N-acetylglucosamine dependent repressor
IolR	Regulator of the inositol catabolism
RutR	Regulator of the pyrimidine and purine metabolism

NZ_AP018365.1 - Region 18 - butyrolactone

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Location: 3,425,894 - 3,436,811 nt. (total: 10,918 nt) Show pHMM detection rules used

butyrolactone: AfsA

Legend:

core biosynthetic genes

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transport-related genes

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resistance

TTA codons

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Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: hydrolase

RVR_RS14105: HAD-superfamily hydrolase, subfamily IA, variant

smcogs: SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000848.5	0.76	other (other)	A-factor	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000849.4	0.57	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0000850.5	0.54	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0002578.2	0.44	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0002571.2	0.31	NRPS	pyoverdine DC3000	Pseudomonas syringae pv. tomato str. DC3000
BGC0001458.4	0.30	other (aminocoumarin)	salinipostin G, Salinipostin G, Salinipostin A, Salinipostin B, Salinipostin C, Salinipostin D, Salinipostin E, Salinipostin F, Salinipostin H, Salinipostin I, Salinipostin J, Salinipostin K	Salinispora tropica CNB-440
BGC0000914.5	0.29	other (other)	methylenomycin A	Streptomyces coelicolor A3(2)
BGC0002657.2	0.26	NRPS, PKS	deoxyhangtaimycin	Streptomyces spectabilis
BGC0001457.4	0.26	NRPS	jomthonic acid A, jomthonic acid B, jomthonic acid C	Streptomyces caniferus
BGC0001771.4	0.25	NRPS	scleric acid	Streptomyces sclerotialus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000848.5	0.76	other (other)	A-factor	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000849.4	0.57	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0000850.5	0.54	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0002578.2	0.44	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0002571.2	0.31	NRPS	pyoverdine DC3000	Pseudomonas syringae pv. tomato str. DC3000
BGC0001458.4	0.30	other (aminocoumarin)	salinipostin G, Salinipostin G, Salinipostin A, Salinipostin B, Salinipostin C, Salinipostin D, Salinipostin E, Salinipostin F, Salinipostin H, Salinipostin I, Salinipostin J, Salinipostin K	Salinispora tropica CNB-440
BGC0000914.5	0.29	other (other)	methylenomycin A	Streptomyces coelicolor A3(2)
BGC0002657.2	0.26	NRPS, PKS	deoxyhangtaimycin	Streptomyces spectabilis
BGC0001457.4	0.26	NRPS	jomthonic acid A, jomthonic acid B, jomthonic acid C	Streptomyces caniferus
BGC0001771.4	0.25	NRPS	scleric acid	Streptomyces sclerotialus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.49 out of 27.04

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47

Confidence: medium

Additional weak hits (7):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.92 out of 30.22

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.12 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.99 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.63 out of 26.06

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 16.61 out of 36.54

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 18.65 out of 27.55

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.11 out of 30.22

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
DasR	N-acetylglucosamine dependent repressor
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 19 - T3PKS,other,terpene-precursor

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Location: 3,541,570 - 3,597,532 nt. (total: 55,963 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)
terpene-precursor: (PT_FPPS_like and not PT_HPP)
other: (Neocarzinostat or bcpB or frbD or mitE or prnB or CaiA or bacilysin or orf2_PTase)

Legend:

core biosynthetic genes

additional biosynthetic genes

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resistance

TTA codons

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Select a gene to view the details available for it

Gene overview

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TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: Oxidation oxygenase

RVR_RS14720: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

RVR_RS14750: Oxidation

MITE: MITE0000084Oxidation (identity: 70.30%)

Transferases: aminotransferase methyltransferase

RVR_RS14655: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

RVR_RS14730: Methylation

MITE: MITE0000085Methylation (identity: 71.30%)
smcogs: SMCOG1042: O-methyltransferase

RVR_RS14740: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

RVR_RS14745: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs: SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

RVR_RS14835: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

Lyases: dehydratase lyase

RVR_RS14615: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

RVR_RS14675: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

RVR_RS14775: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase synthetase

RVR_RS14665: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

RVR_RS14685: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

RVR_RS14690: hydroxymethylglutaryl-CoA synthase

smcogs: SMCOG1043: hydroxymethylglutaryl-CoA synthase

RVR_RS14735: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS14755: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001078.5	1.49	PKS, terpene	furaquinocin B	Streptomyces sp. KO-3988
BGC0002458.3	1.12	NRPS	alazopeptin	Streptacidiphilus griseoplanus
BGC0000286.3	0.82	PKS	viguiepinol	Streptomyces sp. KO-3988
BGC0001080.5	0.73	other (phenazine)	endophenazine A, endophenazine B	Streptomyces anulatus
BGC0002561.3	0.66	other (other)	phenazine SA, phenazine SB, phenazine SC	Streptomyces sp.
BGC0000673.3	0.64	terpene	pimara-8(14),15-diene	Aspergillus nidulans FGSC A4
BGC0002127.3	0.60	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0001310.5	0.57	PKS	naringenin	Streptomyces clavuligerus ATCC 27064
BGC0000902.4	0.56	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0000679.5	0.56	terpene	diazepinomicin	Micromonospora sp. M42

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001078.5	0.85	PKS, terpene	furaquinocin B	Streptomyces sp. KO-3988
BGC0002458.3	0.72	NRPS	alazopeptin	Streptacidiphilus griseoplanus
BGC0000286.3	0.65	PKS	viguiepinol	Streptomyces sp. KO-3988
BGC0002127.3	0.63	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0001310.5	0.62	PKS	naringenin	Streptomyces clavuligerus ATCC 27064
BGC0000902.4	0.62	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0001080.5	0.61	other (phenazine)	endophenazine A, endophenazine B	Streptomyces anulatus
BGC0000285.5	0.57	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0002561.3	0.56	other (other)	phenazine SA, phenazine SB, phenazine SC	Streptomyces sp.
BGC0000673.3	0.54	terpene	pimara-8(14),15-diene	Aspergillus nidulans FGSC A4

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

RVR_RS14665: PT_FPPS_like

Domain 1 (58 - 332): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

Transcription Factor Binding Sites

Binding sites found:

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.59 out of 23.05

Confidence: medium

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.12 out of 30.25

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.02 out of 23.79

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.74 out of 20.47

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.72 out of 20.47

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.40 out of 19.26

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 24.85 out of 30.12

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 19.52 out of 19.52

Confidence: strong

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.11 out of 19.52

Confidence: medium

Additional weak hits (10):

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.26 out of 20.97

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.09 out of 29.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.94 out of 30.25

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.05 out of 27.55

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.81 out of 29.65

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.24 out of 32.93

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.77 out of 35.63

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.98 out of 29.65

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

Terpene

TFBS Finder

NRPS/PKS substrate predictions

RVR_RS14735: X

AMP-binding (44..432): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: RPQIHSRNVAALEASSTFDFQIYGQSEVGPAVGR
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

Link to PARAS substrate predictor

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
ColR	Phenol-responsive regulator
IolR	Regulator of the inositol catabolism
OsdR	Development and stress management regulator
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 20 - indole

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Location: 3,680,693 - 3,701,850 nt. (total: 21,158 nt) Show pHMM detection rules used

indole: (indsynth or dmat or indole_PTase)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

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SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

RVR_RS15190: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001294.5	0.62	other (other)	7-prenylisatin	Streptomyces sp. MBT28
BGC0002128.3	0.45	other (other)	5-dimethylallylindole-3-acetonitrile	Streptomyces coelicolor A3(2)
BGC0001483.4	0.44	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0000902.4	0.41	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0001911.3	0.35	terpene	raimonol	Streptomyces anulatus
BGC0001910.4	0.34	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0002805.2	0.33	other (other)	Azodyrecin A, Azodyrecin B, Azodyrecin C	Streptomyces mirabilis strain P8-A
BGC0002643.2	0.33	other (other)	aetokthonotoxin	Aetokthonos hydrillicola Thurmond2011
BGC0000285.5	0.33	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0001840.2	0.32	NRPS, PKS	detoxin S1	Streptomyces sp. NRRL S-325

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001294.5	0.62	other (other)	7-prenylisatin	Streptomyces sp. MBT28
BGC0002128.3	0.45	other (other)	5-dimethylallylindole-3-acetonitrile	Streptomyces coelicolor A3(2)
BGC0001483.4	0.44	other (other)	5-isoprenylindole-3-carboxylate β-D-glycosyl ester	Streptomyces sp. RM-5-8
BGC0000902.4	0.41	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0001911.3	0.35	terpene	raimonol	Streptomyces anulatus
BGC0001910.4	0.34	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0002805.2	0.33	other (other)	Azodyrecin A, Azodyrecin B, Azodyrecin C	Streptomyces mirabilis strain P8-A
BGC0002643.2	0.33	other (other)	aetokthonotoxin	Aetokthonos hydrillicola Thurmond2011
BGC0000285.5	0.33	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0001840.2	0.32	NRPS, PKS	detoxin S1	Streptomyces sp. NRRL S-325

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

Additional weak hits (6):

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.69 out of 19.26

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.31 out of 36.54

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.73 out of 27.18

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.66 out of 29.65

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.00 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.18 out of 24.78

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 21 - melanin

Download region GenBank file

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Location: 4,108,974 - 4,119,402 nt. (total: 10,429 nt) Show pHMM detection rules used

melanin: melC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000910.3	0.79	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000909.3	0.64	other (other)	melanin	Streptomyces avermitilis
BGC0000911.3	0.60	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000912.3	0.60	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000908.3	0.47	other (other)	melanin	Streptomyces avermitilis
BGC0000885.3	0.32	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000662.5	0.31	terpene	grixazone A	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000889.5	0.31	other (other)	bagremycin A, bagremycin B	Streptomyces sp. WK-5344
BGC0001592.5	0.31	other (other)	ferroverdin, bagremycin	Streptomyces lunaelactis
BGC0001624.3	0.24	other (other)	iso-A82775C	Pestalotiopsis fici

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000910.3	0.79	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000909.3	0.64	other (other)	melanin	Streptomyces avermitilis
BGC0000911.3	0.60	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000912.3	0.60	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000908.3	0.47	other (other)	melanin	Streptomyces avermitilis
BGC0000885.3	0.32	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000662.5	0.31	terpene	grixazone A	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000889.5	0.31	other (other)	bagremycin A, bagremycin B	Streptomyces sp. WK-5344
BGC0001592.5	0.31	other (other)	ferroverdin, bagremycin	Streptomyces lunaelactis
BGC0001624.3	0.24	other (other)	iso-A82775C	Pestalotiopsis fici

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.80 out of 20.47

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.25 out of 20.47

Confidence: medium

Additional weak hits (6):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.67 out of 26.33

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 13.84 out of 21.55

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.92 out of 20.01

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.61 out of 27.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.81 out of 21.84

Confidence: weak

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 17.61 out of 25.31

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 22 - lanthipeptide-class-i

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Location: 4,670,936 - 4,696,228 nt. (total: 25,293 nt) Show pHMM detection rules used

lanthipeptide-class-i: (((Lant_dehydr_N or Lant_dehydr_C) and cds(LANC_like and not Pkinase)) and not (YcaO or TIGR03604))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Lyases: cyclase dehydratase

RVR_RS19630: Lanthionine synthetase C family protein

smcogs: SMCOG1140: Lanthionine synthetase C family protein

RVR_RS19635: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002635.2	0.44	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa
BGC0000544.4	0.41	ribosomal	planosporicin	Planomonospora alba
BGC0000514.5	0.39	ribosomal	gallidermin	Staphylococcus gallinarum
BGC0002120.3	0.37	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000529.5	0.35	ribosomal	microbisporicin A2	Microbispora corallina
BGC0000453.5	0.29	NRPS	valinomycin	Streptomyces tsusimaensis
BGC0000796.3	0.26	saccharide	S-layer glycan	Paenibacillus alvei
BGC0001812.3	0.24	PKS	tylactone	Micromonospora chalcea subsp. izumensis
BGC0000001.5	0.22	PKS	abyssomicin C, atrop-abyssomicin C	Verrucosispora maris AB-18-032
BGC0002552.2	0.21	PKS	ansacarbamitocin	Amycolatopsis sp. CP2808

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002635.2	0.44	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa
BGC0000544.4	0.41	ribosomal	planosporicin	Planomonospora alba
BGC0000514.5	0.39	ribosomal	gallidermin	Staphylococcus gallinarum
BGC0002120.3	0.37	ribosomal	nocathioamide A	Nocardia terpenica IFM 0706
BGC0000529.5	0.35	ribosomal	microbisporicin A2	Microbispora corallina
BGC0000453.5	0.29	NRPS	valinomycin	Streptomyces tsusimaensis
BGC0000796.3	0.26	saccharide	S-layer glycan	Paenibacillus alvei
BGC0001812.3	0.24	PKS	tylactone	Micromonospora chalcea subsp. izumensis
BGC0000001.5	0.22	PKS	abyssomicin C, atrop-abyssomicin C	Verrucosispora maris AB-18-032
BGC0002552.2	0.21	PKS	ansacarbamitocin	Amycolatopsis sp. CP2808

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptides - No core peptides found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.50 out of 20.47

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.50 out of 20.47

Confidence: medium

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

Additional weak hits (5):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.70 out of 25.88

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.35 out of 32.74

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.73 out of 24.78

Confidence: weak

Lanthipeptides

RREFinder

TFBS Finder

Core peptide predictions

No core peptides found.

RRE predictions

: RRE type: Lanthipeptide_LanB_RRE; Location: 156 - 246; Score: 61.1

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 23 - linaridin

Download region GenBank file

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Location: 5,109,216 - 5,129,791 nt. (total: 20,576 nt) Show pHMM detection rules used

linaridin: (cypemycin or cypI)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

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MIBiG comparison

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SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Transferases: methyltransferase

RVR_RS21630: methyltransferase

smcogs: SMCOG1089: methyltransferase

Ligases: synthetase

RVR_RS21650: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001735.5	0.42	other (other)	pentostatine, vidarabine	Streptomyces antibioticus
BGC0001075.5	0.36	PKS, terpene	aurachin RE	Rhodococcus erythropolis
BGC0000906.3	0.35	other (other)	heme D1	Heliophilum fasciatum
BGC0000905.5	0.35	other (other)	heme D1	Heliobacillus mobilis
BGC0000643.3	0.35	terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.3	0.35	terpene	carotenoid	Brevundimonas sp. SD212
BGC0000678.5	0.34	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000648.3	0.34	terpene	carotenoid	Myxococcus xanthus
BGC0000665.5	0.33	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002591.2	0.30	PKS, terpene	aurachin C, aurachin D, aurachin SS	Streptomyces sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001735.5	0.42	other (other)	pentostatine, vidarabine	Streptomyces antibioticus
BGC0001075.5	0.36	PKS, terpene	aurachin RE	Rhodococcus erythropolis
BGC0000906.3	0.35	other (other)	heme D1	Heliophilum fasciatum
BGC0000905.5	0.35	other (other)	heme D1	Heliobacillus mobilis
BGC0000643.3	0.35	terpene	carotenoid	Brevundimonas vesicularis
BGC0000634.3	0.35	terpene	carotenoid	Brevundimonas sp. SD212
BGC0000678.5	0.34	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000648.3	0.34	terpene	carotenoid	Myxococcus xanthus
BGC0000665.5	0.33	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002591.2	0.30	PKS, terpene	aurachin C, aurachin D, aurachin SS	Streptomyces sp.

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.92 out of 20.47

Confidence: medium

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 24.85 out of 29.51

Confidence: medium

Additional weak hits (7):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.32 out of 28.14

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.93 out of 27.55

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.71 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.47 out of 28.14

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.05 out of 30.25

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.07 out of 33.14

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
DosR	Hypoxia stress response regulator
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 24 - benzoxazole,hglE-KS

Download region GenBank file

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Location: 5,858,552 - 5,927,828 nt. (total: 69,277 nt) Show pHMM detection rules used

benzoxazole: (ksIII and AMP-binding and PP-binding and Amidohydro_1)
hglE-KS: (hglE or hglD)

Legend:

core biosynthetic genes

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transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

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KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

RVR_RS25050: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

RVR_RS25055: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

RVR_RS25120: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS25175: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

RVR_RS25180: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: PPTase acylase aminotransferase

RVR_RS25070: DegT/DnrJ/EryC1/StrS aminotransferase

smcogs: SMCOG1056: DegT/DnrJ/EryC1/StrS aminotransferase

RVR_RS25170: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

RVR_RS25185: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

Hydrolases: hydrolase

RVR_RS25125: isochorismatase

smcogs: SMCOG1027: isochorismatase

Isomerases: isomerase

RVR_RS25130: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase synthase

RVR_RS25095: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS25100: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

RVR_RS25105: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS25160: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS25165: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001444.5	0.76	other (shikimate-derived)	caboxamycin	Streptomyces sp. NTK 937
BGC0001292.5	0.74	other (other)	A33853	Streptomyces sp. NRRL 12068
BGC0002493.3	0.54	NRPS	parabactin	Paracoccus denitrificans PD1222
BGC0002474.2	0.52	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0000343.5	0.46	NRPS	enterobactin	Pseudomonas sp. J465
BGC0001850.4	0.41	other (shikimate-derived)	diazaquinomycin A, diazaquinomycin E, diazaquinomycin F, diazaquinomycin G	Streptomyces sp. F001
BGC0002826.2	0.39	other (other)	closoxazole A, closoxazole B	Clostridium cavendishii DSM 21758
BGC0000451.5	0.38	NRPS	turnerbactin	Teredinibacter turnerae T7901
BGC0002476.2	0.38	NRPS	enterobactin	Escherichia coli str. K-12 substr. MG1655
BGC0000936.5	0.37	other (other)	pyocyanine	Pseudomonas aeruginosa PAO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001292.5	0.79	other (other)	A33853	Streptomyces sp. NRRL 12068
BGC0001444.5	0.70	other (shikimate-derived)	caboxamycin	Streptomyces sp. NTK 937
BGC0001276.3	0.65	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.65	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.65	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002493.3	0.60	NRPS	parabactin	Paracoccus denitrificans PD1222
BGC0001160.5	0.60	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0002474.2	0.60	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0001164.3	0.59	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0000861.5	0.58	other (other)	eicosapentaenoic acid	Shewanella sp. BR-2

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.17 out of 23.79

Confidence: medium

Additional weak hits (15):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.33 out of 26.85

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.32 out of 31.73

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.99 out of 26.33

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.43 out of 21.55

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.91 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.51 out of 27.78

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.49 out of 30.22

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.24 out of 27.55

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.16 out of 21.55

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.18 out of 28.19

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.95 out of 35.63

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.48 out of 28.19

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.91 out of 20.01

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.79 out of 30.98

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 29, location 5858551 - 5927828:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 30, location 5858551 - 5895324:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 31, location 5872872 - 5927828:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS25095: X

AMP-binding (63..246): X

nrpys: Val, Leu, Ile, Abu, Ival

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LRYTITGHLAHAWSFVGGEVEEYGSTETGTLAGQ
Nearest Stachelhaus code(s):: nohBza or oh-nitroBza AGAWYAEPLK (62% 8Å match)
Stachelhaus code match:: 60% (weak)

RVR_RS25105: Hpr

Search NORINE for peptide: strict or relaxed

AMP-binding (32..451): Hpr

nrpys: Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: pip (Hpr)

Stachelhaus prediction details:

Stachelhaus sequence:: QAALFTWGCPGGSVQIGSAQQVFGMAEGLCTFTR
Nearest Stachelhaus code(s):: Hpa TWPSQGVLCK (91% 8Å match)
Stachelhaus code match:: 80% (moderate)

RVR_RS25160: mal

PKS_AT (570..868): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 66.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 82.7
Methoxymalonyl-CoA: 39.2
Methylmalonyl-CoA: 32.0
inactive: 26.0
CHC-CoA: 18.1
fatty_acid: 11.4
2-Methylbutyryl-CoA: 11.1
Ethylmalonyl-CoA: 9.9
Isobutyryl-CoA: 9.8
Propionyl-CoA: 9.7
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

RVR_RS25165: pk

PKS_AT (1209..1361): pk

ATSignature: (unknown)

No matches above 50%

minowa: trans-1,2-CPDA

Prediction, score:

trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
Propionyl-CoA: 0.0
Methylmalonyl-CoA: 0.0
Methoxymalonyl-CoA: 0.0
Malonyl-CoA: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism

NZ_AP018365.1 - Region 25 - NI-siderophore

Download region GenBank file

Download region SVG

Location: 6,500,719 - 6,533,241 nt. (total: 32,523 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxygenase

RVR_RS27975: Antibiotic biosynthesis monooxygenase

smcogs: SMCOG1258: Antibiotic biosynthesis monooxygenase

Transferases: aminotransferase

RVR_RS27930: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Isomerases: mutase

RVR_RS27980: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002692.2	0.55	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0001713.5	0.53	other (other)	ochrobactin	Ochrobactrum anthropi
BGC0000941.3	0.52	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002683.2	0.52	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0002469.2	0.51	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0000295.5	0.51	NRPS	acinetoferrin	Acinetobacter haemolyticus
BGC0002633.2	0.51	other (other)	schizokinen	Leptolyngbya sp. PCC 7376
BGC0001531.5	0.51	other (other)	bisucaberin B	Tenacibaculum mesophilum
BGC0002470.2	0.51	other (other)	synechobactin C9, synechobactin C11, synechobactin 13, synechobactin 14, synechobactin 16, synechobactin A, synechobactin B, synechobactin C	Synechococcus sp. PCC 7002
BGC0001572.3	0.50	other (other)	desferrioxamine E	Pantoea agglomerans

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002692.2	0.55	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0001713.5	0.53	other (other)	ochrobactin	Ochrobactrum anthropi
BGC0000941.3	0.52	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002683.2	0.52	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0002469.2	0.51	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0000295.5	0.51	NRPS	acinetoferrin	Acinetobacter haemolyticus
BGC0002633.2	0.51	other (other)	schizokinen	Leptolyngbya sp. PCC 7376
BGC0001531.5	0.51	other (other)	bisucaberin B	Tenacibaculum mesophilum
BGC0002470.2	0.51	other (other)	synechobactin C9, synechobactin C11, synechobactin 13, synechobactin 14, synechobactin 16, synechobactin A, synechobactin B, synechobactin C	Synechococcus sp. PCC 7002
BGC0001572.3	0.50	other (other)	desferrioxamine E	Pantoea agglomerans

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.38 out of 19.26

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.54 out of 23.79

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.93 out of 24.78

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.95 out of 29.65

Confidence: medium

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 22.44 out of 27.18

Confidence: medium

Additional weak hits (10):

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.46 out of 25.75

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.56 out of 29.38

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.86 out of 26.33

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52

Confidence: weak

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.84 out of 21.55

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.09 out of 29.65

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.77 out of 25.88

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.11 out of 25.75

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 21.32 out of 27.18

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
IolR	Regulator of the inositol catabolism
LexA variant 1	Repressor of DNA damage response
LexA variant 2	Repressor of DNA damage response
NrdR	Represses ribonucleotide reductase encoding genes

NZ_AP018365.1 - Region 26 - terpene

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Location: 7,083,210 - 7,110,057 nt. (total: 26,848 nt) Show pHMM detection rules used

terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase

RVR_RS30680: dehydrogenase

smcogs: SMCOG1181: dehydrogenase

Transferases: aminotransferase transferase

RVR_RS30675: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs: SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

RVR_RS30745: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Ligases: synthase synthetase

RVR_RS30720: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

RVR_RS30740: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000663.5	0.70	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0000647.3	0.57	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000656.5	0.51	terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0002162.3	0.50	terpene	sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8	Aspergillus fischeri NRRL 181
BGC0002610.3	0.50	terpene	stellatic acid	Aspergillus stellatus
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0000646.5	0.49	terpene	β-carotein	uncultured bacterium
BGC0000640.3	0.48	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0002173.2	0.48	saccharide, terpene	fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol	Aspergillus fumigatus A1163

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000663.5	0.70	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0000647.3	0.57	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000656.5	0.51	terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0002162.3	0.50	terpene	sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8	Aspergillus fischeri NRRL 181
BGC0002610.3	0.50	terpene	stellatic acid	Aspergillus stellatus
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0000646.5	0.49	terpene	β-carotein	uncultured bacterium
BGC0000640.3	0.48	terpene	carotenoid	Enterobacteriaceae bacterium DC404
BGC0002173.2	0.48	saccharide, terpene	fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol	Aspergillus fumigatus A1163

Similar known clusters from MIBiG 4.0

Similar subclusters

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
triterpene	hopanoid		C30	hopanoid skeleton	unknown
triterpene	polypodane		C30	polypodane skeleton	unknown

Genes with terpene domains:

RVR_RS30705: PT_phytoene_like

Domain 1 (14 - 281): Prenyltransferase; Phytoene synthase like

Subtype: Hydroxysqualene synthase

Reactions:: PSPP → hydroxysqualene

RVR_RS30710: PT_phytoene_like

Domain 1 (17 - 308): Prenyltransferase; Phytoene synthase like

Subtype: unknown

Reactions:: FPP → squalene; FPP → diapophytoene; FPP → PSPP; GGPP → phytoene; PSPP → hydroxysqualene

RVR_RS30720: PT_FPPS_like

Domain 1 (62 - 347): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

RVR_RS30725: T2TS

Domain 1 (20 - 655): Type 2 terpene synthase

Subtype: Squalene substrate

Reactions:: squalene → hopanoid; squalene → polypodane

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.46 out of 20.47

Confidence: strong

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 19.02 out of 21.84

Confidence: medium

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 22.44 out of 27.18

Confidence: medium

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 20.22 out of 23.43

Confidence: medium

Additional weak hits (8):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.04 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.75 out of 29.38

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.82 out of 36.54

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.21 out of 18.57

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.11 out of 25.75

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.91 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.89 out of 27.78

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.40 out of 36.53

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
BldD	Development and antibiotic global regulator
MexT	Global virulence regulator
NrdR	Represses ribonucleotide reductase encoding genes
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 27 - T1PKS,terpene

Download region GenBank file

Download region SVG

Location: 7,145,500 - 7,279,965 nt. (total: 134,466 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

RVR_RS30930: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

RVR_RS30985: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

RVR_RS31000: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

RVR_RS31005: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

RVR_RS31010: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS31020: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS31040: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

RVR_RS31085: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

RVR_RS31090: dehydrogenase

smcogs: SMCOG1072: dehydrogenase

RVR_RS31115: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS31130: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS31155: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS31165: dioxygenase, TauD/TfdA

smcogs: SMCOG1121: dioxygenase, TauD/TfdA

RVR_RS31170: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acylase aminotransferase glycosyltransferase methyltransferase sulfotransferase

RVR_RS31030: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

RVR_RS31120: Sulfotransferase domain

extras: Sulfotransfer_4: Sulfotransferase domain

RVR_RS31125: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

RVR_RS31135: aminotransferase

smcogs: SMCOG1019: aminotransferase

RVR_RS31160: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

Hydrolases: hydrolase peptidase

RVR_RS31045: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

RVR_RS31080: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

Ligases: ligase synthase synthetase

RVR_RS30975: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

RVR_RS30980: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS30990: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS30995: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS31050: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS31140: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

RVR_RS38750: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000135.5	1.00	PKS	reveromycin A	Streptomyces sp. SN-593
BGC0002084.4	0.48	ribosomal	biarylitide YYH	Planomonospora sp. ID82291
BGC0002631.2	0.42	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000844.5	0.35	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0002007.2	0.34	terpene	atolypene A, atolypene B	Amycolatopsis tolypomycina
BGC0001529.5	0.34	other (other)	benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K	Streptomyces sp. RI18
BGC0000058.5	0.33	PKS	FD-891	Streptomyces graminofaciens
BGC0001012.3	0.32	NRPS, PKS	meridamycin	Streptomyces violaceusniger
BGC0001605.3	0.32	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002193.2	0.31	other (other)	phenguignardic acid	Aspergillus terreus NIH2624

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000135.5	0.98	PKS	reveromycin A	Streptomyces sp. SN-593
BGC0002193.2	0.65	other (other)	phenguignardic acid	Aspergillus terreus NIH2624
BGC0001164.3	0.64	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.64	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0002286.3	0.63	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4	0.63	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002276.2	0.63	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001128.4	0.63	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001833.4	0.63	NRPS	icosalide A, icosalide B	Burkholderia gladioli

Similar known clusters from MIBiG 4.0

Similar subclusters

Detailed terpene predictions

Product predictions:

Class	Product name	Chain length	Initial cyclisations	Functional groups
sesquiterpene precursor	FPP	C15	acyclic	PP
diterpene precursor	GGPP	C20	acyclic	PP
sesterterpene precursor	GFPP	C25	acyclic	PP
triterpene precursor	HPP	C30	acyclic	PP

Genes with terpene domains:

RVR_RS31140: PT_FPPS_like

Domain 1 (41 - 329): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

Reactions:: IPP, DMAPP → FPP; IPP, DMAPP → GGPP; IPP, DMAPP → GFPP; IPP, DMAPP → HPP

RVR_RS31150: T2TS

Domain 1 (281 - 558): Type 2 terpene synthase

Subtype: unknown

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.53 out of 23.79

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.62 out of 23.79

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.28 out of 19.52

Confidence: medium

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

Additional weak hits (32):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.52 out of 21.55

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.32 out of 26.85

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.78 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.77 out of 21.55

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.25 out of 36.54

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.64 out of 27.78

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.85 out of 39.62

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.68 out of 26.06

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.84 out of 36.54

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.16 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.63 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.53 out of 21.55

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.69 out of 26.85

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.07 out of 33.73

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 18.65 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.96 out of 29.38

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.42 out of 21.55

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.43 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.03 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.76 out of 27.78

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.03 out of 19.26

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.27 out of 26.06

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 20.43 out of 35.63

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.08 out of 35.63

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.48 out of 28.19

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 23.78 out of 30.98

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.69 out of 27.18

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.80 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.93 out of 28.19

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.90 out of 27.04

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 30.11

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

Terpene

TFBS Finder

Predicted core structure(s)

For candidate cluster 34, location 7145499 - 7279965:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - ccmal - Me-ccmal - ccmal) + (Me-ohmal - redmal - ohmal) + (Me-redmal - ohmal) + (Me-ccmal - ccmal - Me-ohmal - ccmal)
Non-colinear ordering:: RVR_RS31050 + RVR_RS30990 + RVR_RS30995 + RVR_RS38750

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 35, location 7145499 - 7264988:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - ccmal - Me-ccmal - ccmal) + (Me-ohmal - redmal - ohmal) + (Me-redmal - ohmal) + (Me-ccmal - ccmal - Me-ohmal - ccmal)
Non-colinear ordering:: RVR_RS31050 + RVR_RS30990 + RVR_RS30995 + RVR_RS38750

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS30980: fatty_acid

CAL_domain (43..477): fatty_acid

minowa: fatty_acid

Prediction, score:

fatty_acid: 14.9
NH2: 11.2
Acetyl-CoA: 1.0
shikimic_acid: 0.0
AHBA: -0.5

RVR_RS30990: mmal - mal - mal

PKS_AT (563..863): mmal

ATSignature: Methylmalonyl-CoA, Ethylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 79.2%; Ethylmalonyl-CoA: 79.2%; Malonyl-CoA: 75.0%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 174.6
Ethylmalonyl-CoA: 163.3
Methoxymalonyl-CoA: 147.8
2-Methylbutyryl-CoA: 100.9
CHC-CoA: 96.8
trans-1,2-CPDA: 95.4
Isobutyryl-CoA: 78.4
Propionyl-CoA: 75.3
Malonyl-CoA: 71.4
Benzoyl-CoA: 71.1
3-Methylbutyryl-CoA: 36.9
fatty_acid: 36.2
Acetyl-CoA: 22.5
inactive: 17.2

PKS_AT (2105..2379): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 211.6
inactive: 96.4
Methoxymalonyl-CoA: 59.7
Methylmalonyl-CoA: 50.3
Propionyl-CoA: 28.3
Isobutyryl-CoA: 25.3
Acetyl-CoA: 24.9
Benzoyl-CoA: 20.9
Ethylmalonyl-CoA: 19.9
fatty_acid: 14.9
2-Methylbutyryl-CoA: 14.1
CHC-CoA: 12.0
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (4165..4444): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 201.4
inactive: 90.5
Methoxymalonyl-CoA: 59.1
Methylmalonyl-CoA: 44.6
Isobutyryl-CoA: 27.0
Acetyl-CoA: 26.1
Propionyl-CoA: 24.7
Ethylmalonyl-CoA: 20.2
Benzoyl-CoA: 19.5
fatty_acid: 13.4
2-Methylbutyryl-CoA: 13.1
CHC-CoA: 9.8
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

RVR_RS30995: mmal - mal

PKS_AT (602..894): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 213.5
Ethylmalonyl-CoA: 208.8
Methoxymalonyl-CoA: 165.5
2-Methylbutyryl-CoA: 133.3
Propionyl-CoA: 123.4
trans-1,2-CPDA: 122.6
Malonyl-CoA: 118.6
CHC-CoA: 106.1
Isobutyryl-CoA: 81.2
Acetyl-CoA: 71.5
Benzoyl-CoA: 65.6
inactive: 45.6
3-Methylbutyryl-CoA: 36.1
fatty_acid: 25.6

PKS_AT (2704..2982): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 75.0%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 218.1
inactive: 97.9
Methoxymalonyl-CoA: 69.7
Methylmalonyl-CoA: 53.8
Propionyl-CoA: 35.0
Isobutyryl-CoA: 28.2
Acetyl-CoA: 23.7
Benzoyl-CoA: 22.7
fatty_acid: 22.0
CHC-CoA: 20.6
Ethylmalonyl-CoA: 19.8
trans-1,2-CPDA: 17.7
2-Methylbutyryl-CoA: 9.5
3-Methylbutyryl-CoA: 0.0

RVR_RS31030: pk

PKS_AT (11..275): pk

ATSignature: (unknown)

No matches above 50%

minowa: trans-1,2-CPDA

Prediction, score:

trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
Propionyl-CoA: 0.0
Methylmalonyl-CoA: 0.0
Methoxymalonyl-CoA: 0.0
Malonyl-CoA: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

RVR_RS31035: X

AMP-binding (91..307): X

nrpys: Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: HFHTIGLGVQESNTRVSGTVGSYG---NTFGTSA
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

RVR_RS31050: mmal - mal - mmal - mal

PKS_AT (546..858): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Ethylmalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 210.6
Ethylmalonyl-CoA: 206.6
Methoxymalonyl-CoA: 163.5
2-Methylbutyryl-CoA: 150.5
Malonyl-CoA: 116.7
CHC-CoA: 115.3
trans-1,2-CPDA: 107.9
Propionyl-CoA: 107.2
Isobutyryl-CoA: 84.3
Benzoyl-CoA: 63.3
3-Methylbutyryl-CoA: 46.5
Acetyl-CoA: 45.6
fatty_acid: 40.1
inactive: 30.0

PKS_AT (1587..1866): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 201.7
inactive: 86.5
Methoxymalonyl-CoA: 60.0
Methylmalonyl-CoA: 44.6
Isobutyryl-CoA: 27.1
Acetyl-CoA: 26.0
Propionyl-CoA: 24.8
Benzoyl-CoA: 20.2
Ethylmalonyl-CoA: 18.6
fatty_acid: 13.7
2-Methylbutyryl-CoA: 13.6
CHC-CoA: 11.5
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (3338..3628): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Ethylmalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 213.5
Ethylmalonyl-CoA: 206.9
Methoxymalonyl-CoA: 171.9
2-Methylbutyryl-CoA: 148.3
trans-1,2-CPDA: 127.7
Propionyl-CoA: 113.3
CHC-CoA: 111.3
Malonyl-CoA: 98.5
Isobutyryl-CoA: 76.6
Benzoyl-CoA: 70.9
Acetyl-CoA: 54.3
fatty_acid: 52.7
3-Methylbutyryl-CoA: 33.3
inactive: 29.7

PKS_AT (5034..5313): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 202.5
inactive: 86.8
Methoxymalonyl-CoA: 61.4
Methylmalonyl-CoA: 46.9
Isobutyryl-CoA: 29.5
Acetyl-CoA: 26.5
Propionyl-CoA: 26.2
Ethylmalonyl-CoA: 23.2
Benzoyl-CoA: 19.7
2-Methylbutyryl-CoA: 15.4
fatty_acid: 13.5
CHC-CoA: 12.2
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

RVR_RS38750: mmal - mal - mmal - mal

PKS_AT (577..867): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Ethylmalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 214.1
Ethylmalonyl-CoA: 208.8
Methoxymalonyl-CoA: 171.7
2-Methylbutyryl-CoA: 148.2
trans-1,2-CPDA: 131.0
Propionyl-CoA: 114.2
CHC-CoA: 110.1
Malonyl-CoA: 100.2
Isobutyryl-CoA: 77.9
Benzoyl-CoA: 70.5
Acetyl-CoA: 54.0
fatty_acid: 52.7
3-Methylbutyryl-CoA: 32.7
inactive: 29.5

PKS_AT (2328..2605): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 207.8
inactive: 91.4
Methoxymalonyl-CoA: 58.9
Methylmalonyl-CoA: 48.5
Propionyl-CoA: 27.5
Acetyl-CoA: 25.9
Isobutyryl-CoA: 25.4
Benzoyl-CoA: 20.9
Ethylmalonyl-CoA: 19.8
2-Methylbutyryl-CoA: 14.9
fatty_acid: 14.0
CHC-CoA: 12.6
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (4055..4345): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 91.7%; Ethylmalonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 213.0
Ethylmalonyl-CoA: 205.5
Methoxymalonyl-CoA: 172.1
2-Methylbutyryl-CoA: 144.1
trans-1,2-CPDA: 130.6
Propionyl-CoA: 115.5
CHC-CoA: 108.2
Malonyl-CoA: 99.9
Isobutyryl-CoA: 72.9
Benzoyl-CoA: 68.4
Acetyl-CoA: 56.8
fatty_acid: 50.4
3-Methylbutyryl-CoA: 36.6
inactive: 32.5

PKS_AT (5564..5843): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 199.9
inactive: 88.6
Methoxymalonyl-CoA: 59.1
Methylmalonyl-CoA: 44.6
Isobutyryl-CoA: 29.0
Acetyl-CoA: 26.0
Propionyl-CoA: 23.6
Benzoyl-CoA: 19.3
Ethylmalonyl-CoA: 18.6
2-Methylbutyryl-CoA: 14.9
fatty_acid: 13.4
CHC-CoA: 12.3
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
GFPP	Geranylfarnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
HPP	Hexaprenyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
IolR	Regulator of the inositol catabolism

NZ_AP018365.1 - Region 28 - T1PKS

Download region GenBank file

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Location: 7,316,223 - 7,443,763 nt. (total: 127,541 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

RVR_RS31435: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

RVR_RS31450: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS31470: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS31480: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

RVR_RS31485: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS38755: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

Hydrolases: esterase hydrolase

RVR_RS31400: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

RVR_RS31430: thioesterase

smcogs: SMCOG1004: thioesterase

Lyases: dehydratase hydratase

RVR_RS31405: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

RVR_RS31420: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

Ligases: synthase

RVR_RS31445: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS31495: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS38080: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Translocases: transporter

RVR_RS31580: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001164.3	0.63	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002154.2	0.63	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001258.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0001257.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001164.3	0.63	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002154.2	0.63	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001258.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis
BGC0001257.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.09 out of 30.12

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 18.33 out of 19.52

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.54 out of 23.79

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 30.11 out of 30.11

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.82 out of 18.46

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.25 out of 20.47

Confidence: medium

Additional weak hits (9):

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.58 out of 26.12

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.07 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.27 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.87 out of 27.78

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.18 out of 26.33

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.76 out of 29.25

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.93 out of 25.88

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.18 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.41 out of 28.19

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 37, location 7316222 - 7443763:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (mal - Me-redmal - Me-redmal - Me-ccmal) + (redmal - Me-redmal - Me-redmal - redmal) + (redmal - redmal - Me-ccmal - Me-redmal) + (pk)
Non-colinear ordering:: RVR_RS38755 + RVR_RS31495 + RVR_RS38080 + RVR_RS31445

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS31445: pk

PKS_AT (567..846): pk

ATSignature: Ethylmalonyl-CoA

Top 3 matches:: Ethylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Methylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 181.3
Ethylmalonyl-CoA: 180.2
Methoxymalonyl-CoA: 154.4
2-Methylbutyryl-CoA: 117.7
trans-1,2-CPDA: 107.5
Propionyl-CoA: 101.3
CHC-CoA: 99.6
Malonyl-CoA: 96.4
Isobutyryl-CoA: 67.2
Acetyl-CoA: 56.6
Benzoyl-CoA: 51.5
fatty_acid: 31.7
inactive: 24.8
3-Methylbutyryl-CoA: 12.0

RVR_RS38755: mal - mmal - mmal - mmal

PKS_AT (569..838): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 162.9
Methoxymalonyl-CoA: 51.7
inactive: 50.5
Methylmalonyl-CoA: 43.2
Acetyl-CoA: 24.0
Propionyl-CoA: 16.0
Isobutyryl-CoA: 15.7
fatty_acid: 13.5
Ethylmalonyl-CoA: 6.6
CHC-CoA: 5.3
2-Methylbutyryl-CoA: 1.0
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (1985..2264): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 189.2
Ethylmalonyl-CoA: 165.8
Methoxymalonyl-CoA: 147.7
2-Methylbutyryl-CoA: 116.9
trans-1,2-CPDA: 108.3
Propionyl-CoA: 98.3
CHC-CoA: 95.7
Malonyl-CoA: 85.5
Isobutyryl-CoA: 72.9
Benzoyl-CoA: 50.2
Acetyl-CoA: 46.4
fatty_acid: 29.4
inactive: 22.0
3-Methylbutyryl-CoA: 13.1

PKS_AT (4035..4322): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 190.4
Ethylmalonyl-CoA: 165.8
Methoxymalonyl-CoA: 145.4
2-Methylbutyryl-CoA: 115.5
trans-1,2-CPDA: 110.7
Propionyl-CoA: 101.8
Malonyl-CoA: 99.4
CHC-CoA: 98.7
Isobutyryl-CoA: 77.5
Benzoyl-CoA: 51.7
Acetyl-CoA: 44.7
fatty_acid: 30.0
inactive: 29.9
3-Methylbutyryl-CoA: 12.9

PKS_AT (6081..6360): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 193.2
Ethylmalonyl-CoA: 167.2
Methoxymalonyl-CoA: 147.1
2-Methylbutyryl-CoA: 118.0
trans-1,2-CPDA: 112.1
Propionyl-CoA: 100.3
Malonyl-CoA: 99.2
CHC-CoA: 97.2
Isobutyryl-CoA: 79.0
Benzoyl-CoA: 55.4
Acetyl-CoA: 50.1
fatty_acid: 35.8
inactive: 24.4
3-Methylbutyryl-CoA: 20.1

RVR_RS31495: mal - mmal - mmal - mal

PKS_AT (600..869): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 162.9
Methoxymalonyl-CoA: 51.7
inactive: 50.5
Methylmalonyl-CoA: 43.2
Acetyl-CoA: 24.0
Propionyl-CoA: 16.0
Isobutyryl-CoA: 15.7
fatty_acid: 13.5
Ethylmalonyl-CoA: 6.6
CHC-CoA: 5.3
2-Methylbutyryl-CoA: 1.0
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (2657..2936): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 189.8
Ethylmalonyl-CoA: 165.1
Methoxymalonyl-CoA: 149.3
2-Methylbutyryl-CoA: 116.0
trans-1,2-CPDA: 106.8
CHC-CoA: 96.7
Propionyl-CoA: 96.5
Malonyl-CoA: 86.2
Isobutyryl-CoA: 68.3
Benzoyl-CoA: 49.7
Acetyl-CoA: 44.7
fatty_acid: 28.2
inactive: 23.1
3-Methylbutyryl-CoA: 9.5

PKS_AT (4710..4989): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 192.0
Ethylmalonyl-CoA: 168.4
Methoxymalonyl-CoA: 150.0
2-Methylbutyryl-CoA: 117.7
trans-1,2-CPDA: 111.5
Propionyl-CoA: 98.0
CHC-CoA: 97.9
Malonyl-CoA: 91.4
Isobutyryl-CoA: 69.3
Benzoyl-CoA: 51.2
Acetyl-CoA: 46.8
fatty_acid: 30.2
inactive: 23.5
3-Methylbutyryl-CoA: 11.1

PKS_AT (6780..7049): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 162.9
Methoxymalonyl-CoA: 51.7
inactive: 50.5
Methylmalonyl-CoA: 43.2
Acetyl-CoA: 24.0
Propionyl-CoA: 16.0
Isobutyryl-CoA: 15.7
fatty_acid: 13.5
Ethylmalonyl-CoA: 6.6
CHC-CoA: 5.3
2-Methylbutyryl-CoA: 1.0
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

RVR_RS38080: mal - mal - mmal - mmal

PKS_AT (602..871): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 162.9
Methoxymalonyl-CoA: 51.7
inactive: 50.5
Methylmalonyl-CoA: 43.2
Acetyl-CoA: 24.0
Propionyl-CoA: 16.0
Isobutyryl-CoA: 15.7
fatty_acid: 13.5
Ethylmalonyl-CoA: 6.6
CHC-CoA: 5.3
2-Methylbutyryl-CoA: 1.0
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (2649..2918): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 162.9
Methoxymalonyl-CoA: 51.7
inactive: 50.5
Methylmalonyl-CoA: 43.2
Acetyl-CoA: 24.0
Propionyl-CoA: 16.0
Isobutyryl-CoA: 15.7
fatty_acid: 13.5
Ethylmalonyl-CoA: 6.6
CHC-CoA: 5.3
2-Methylbutyryl-CoA: 1.0
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (4694..4973): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 189.5
Ethylmalonyl-CoA: 163.6
Methoxymalonyl-CoA: 147.6
2-Methylbutyryl-CoA: 114.7
trans-1,2-CPDA: 105.9
CHC-CoA: 98.9
Propionyl-CoA: 95.9
Malonyl-CoA: 86.2
Isobutyryl-CoA: 71.3
Benzoyl-CoA: 48.5
Acetyl-CoA: 45.6
fatty_acid: 30.9
inactive: 26.4
3-Methylbutyryl-CoA: 14.9

PKS_AT (6441..6726): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 187.9
Ethylmalonyl-CoA: 164.7
Methoxymalonyl-CoA: 145.0
2-Methylbutyryl-CoA: 114.9
trans-1,2-CPDA: 109.1
Propionyl-CoA: 99.8
CHC-CoA: 95.2
Malonyl-CoA: 94.7
Isobutyryl-CoA: 73.0
Benzoyl-CoA: 53.5
Acetyl-CoA: 46.2
inactive: 27.6
fatty_acid: 26.9
3-Methylbutyryl-CoA: 11.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
CelR	Cellobiose uptake repressor
IolR	Regulator of the inositol catabolism
OsdR	Development and stress management regulator
RpoN	Regulator of nitrogen assimilation and virulence
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 29 - T2PKS

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Location: 7,450,327 - 7,522,815 nt. (total: 72,489 nt) Show pHMM detection rules used

T2PKS: (t2ks and t2clf)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase oxygenase

RVR_RS31720: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

RVR_RS31785: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

RVR_RS31810: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

RVR_RS31830: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS31840: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS31865: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS31880: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

RVR_RS31885: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

RVR_RS31890: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS31895: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

RVR_RS31940: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

Transferases: methyltransferase

RVR_RS31725: methyltransferase

smcogs: SMCOG1089: methyltransferase

RVR_RS31820: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

Hydrolases: peptidase

RVR_RS31930: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

Lyases: cyclase

RVR_RS31835: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

RVR_RS31860: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

Ligases: synthase

RVR_RS31850: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS31855: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS31985: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.83	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002712.2	0.82	PKS	WS-5995 D, WS-5995 B, WS-5995 C, SEK 43	Streptomyces yanglinensis
BGC0001723.5	0.78	PKS	oviedomycin	Streptomyces antibioticus
BGC0000234.5	0.77	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002477.3	0.65	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072
BGC0002000.4	0.64	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0000235.5	0.64	PKS	kiamycin	Streptomyces sp. W007
BGC0002047.2	0.60	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0000272.3	0.60	PKS	spore pigment	Streptomyces collinus
BGC0002672.2	0.59	PKS	saccharothrixin D, saccharothrixin E, saccharothrixin F, saccharothrixin G, saccharothrixin H, saccharothrixin I, saccharothrixin J, saccharothrixin K, saccharothrixin L, saccharothrixin M	Saccharothrix sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000231.5	0.83	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002712.2	0.82	PKS	WS-5995 D, WS-5995 B, WS-5995 C, SEK 43	Streptomyces yanglinensis
BGC0001723.5	0.78	PKS	oviedomycin	Streptomyces antibioticus
BGC0000234.5	0.77	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002477.3	0.65	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072
BGC0002000.4	0.64	PKS	setomimycin	Streptomyces aurantiacus JA 4570
BGC0000235.5	0.64	PKS	kiamycin	Streptomyces sp. W007
BGC0002047.2	0.60	PKS	brasiliquinone A, brasiliquinone B	Nocardia brasiliensis
BGC0000272.3	0.60	PKS	spore pigment	Streptomyces collinus
BGC0002672.2	0.59	PKS	saccharothrixin D, saccharothrixin E, saccharothrixin F, saccharothrixin G, saccharothrixin H, saccharothrixin I, saccharothrixin J, saccharothrixin K, saccharothrixin L, saccharothrixin M	Saccharothrix sp.

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.98 out of 20.97

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 24.00 out of 29.65

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 24.46 out of 30.11

Confidence: medium

Additional weak hits (11):

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.19 out of 18.57

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.99 out of 26.33

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.84 out of 29.38

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.84 out of 27.78

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 19.80 out of 31.73

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.58 out of 26.12

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.92 out of 25.75

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.48 out of 29.25

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.40 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.16 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.37 out of 28.19

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

Type II PKS

TFBS Finder

Type II PKS gene cluster prediction details

Cluster section:: 7450326 to 7522815
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:: 8|9 (Score: 682.5; E-value: 3.8e-208)
Product class(es):: angucycline
Product molecular weight(s):: acetyl-CoA_8: 398 Da
acetyl-CoA_9: 440 Da

RVR_RS31820: MET (Score: 294.7; E-value: 2e-90)
RVR_RS31830: OXY (Score: 537.1; E-value: 9.5e-164)
RVR_RS31835: CYC C7-C12 (Score: 478.7; E-value: 1.4e-146)
RVR_RS31840: KR C9 (Score: 464.4; E-value: 2.2e-142)
RVR_RS31845: ACP (Score: 122.0; E-value: 1.9e-38)
RVR_RS31850: CLF 8|9 (Score: 682.5; E-value: 3.8e-208)
RVR_RS31855: KS (Score: 788.4; E-value: 3.2e-240)
RVR_RS31860: CYC C4-C17/C2-C19 (Score: 196.1; E-value: 1.2e-60)
RVR_RS31865: OXY (Score: 580.5; E-value: 6.4e-177)
RVR_RS31890: KR (Score: 173.5; E-value: 1.5e-53)
RVR_RS31895: OXY (Score: 383.9; E-value: 2.9e-117)

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
CelR	Cellobiose uptake repressor
LexA variant 1	Repressor of DNA damage response

NZ_AP018365.1 - Region 30 - lanthipeptide-class-ii,lanthipeptide-class-iv

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Location: 7,986,833 - 8,018,583 nt. (total: 31,751 nt) Show pHMM detection rules used

lanthipeptide-class-ii: cds(LANC_like and DUF4135)
lanthipeptide-class-iv: (cds(LANC_like and Pkinase) and not micKC)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: oxidoreductase

RVR_RS33995: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

Transferases: aminotransferase

RVR_RS34015: aminotransferase

smcogs: SMCOG1019: aminotransferase

Lyases: cyclase

RVR_RS33960: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Ligases: synthase

RVR_RS33930: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001226.4	0.35	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0001229.4	0.32	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000528.5	0.31	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000517.4	0.30	ribosomal	haloduracin β, haloduracin α	Bacillus halodurans C-125
BGC0000519.4	0.27	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0001454.5	0.27	other (other)	germicidin	Streptomyces argillaceus
BGC0002110.3	0.27	ribosomal	birimositide	Streptomyces rimosus subsp. rimosus WC-3908
BGC0002699.2	0.24	ribosomal	nostolysamide A, nostolysamide B	Nostoc punctiforme PCC 73102
BGC0002663.2	0.23	ribosomal	amyloliquecidin GF610	Bacillus amyloliquefaciens UMAF6639
BGC0000527.5	0.23	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001454.5	0.60	other (other)	germicidin	Streptomyces argillaceus
BGC0001226.4	0.51	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000528.5	0.48	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001229.4	0.47	ribosomal	SBI-06990 A1, SBI-06989 A2	Streptomyces bingchenggensis BCW-1
BGC0000517.4	0.46	ribosomal	haloduracin β, haloduracin α	Bacillus halodurans C-125
BGC0000519.4	0.45	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0002110.3	0.43	ribosomal	birimositide	Streptomyces rimosus subsp. rimosus WC-3908
BGC0002127.3	0.42	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0001485.4	0.42	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0001896.4	0.41	other (other)	carbazomycin B	Streptomyces luteoverticillatus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for RVR_RS33960

allorf_8002653_8002877

Leader:

MRRHETLLPRRGHAARAVRAVGPLPRRRGARRVPGA

allorf_8002653_8002877

Leader:

MRRHETLLPRRGHAARAVRAVGPLPRRRGARRVPGA

Shared core:

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

Core with dehydrations:

PRRDRDhbGADhbGDhaDhbGADhbRADhbRAPCysADhbGDhbDDVDhaGPRPGHGCys

antiSMASH-DB 4.0 matches for allorf_8002653_8002877

100.0%

NZ_AP018365.1and 3 others:

NZ_AP018365.1 Lanthipeptides: allorf_8002653_8002877_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8002653_8002877_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8002653_8002877_lanthipeptide

Lanthipeptides: allorf_8002653_8002877_lanthipeptide

1

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

38

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

1

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

38

34.2%

NZ_CP033923.1:

Lanthipeptides: EG343_RS10035_lanthipeptide

7

GATGSTGATRATRAPCATGTDDVSGPRP

34

GATGS+ AT A C T + PRP

4

GATGSSSGCDAT-AVCGCVTQTIRIPRP

30

18.4%

NZ_KB976165.1and 1 other:

NZ_MOOT01000054.1 Lanthipeptides: BK765_RS17675_lanthipeptide

Lanthipeptides: ICC_RS37095_lanthipeptide

12

TGATRATRAPCATGT

26

T + +RAPC +GT

3

TSILKVSRAPCKSGT

17

with 1 more sequence matches

13.6%

NZ_CP046514.1and 9 others:

NZ_CP069278.1 Lanthipeptides: allorf_1033752_1033973_lanthipeptideNZ_GL622638.1 Lanthipeptides: allorf_31875_32096_lanthipeptideNZ_JADMSA010000006.1 Lanthipeptides: allorf_049253_049474_lanthipeptideNZ_JADMUN010000007.1 Lanthipeptides: allorf_076793_077014_lanthipeptideNZ_JADNBL010000011.1 Lanthipeptides: allorf_61109_61330_lanthipeptideNZ_JADPBZ010000019.1 Lanthipeptides: allorf_14831_15052_lanthipeptideNZ_JADPCP010000015.1 Lanthipeptides: allorf_17792_18013_lanthipeptideNZ_JAHTKJ010000004.1 Lanthipeptides: allorf_025782_026003_lanthipeptideNZ_NJNX01000015.1 Lanthipeptides: allorf_53588_53809_lanthipeptide

Lanthipeptides: allorf_1935663_1935884_lanthipeptide

16

RATRAPCATGTDDVSGPRP

34

RAT+ PCA RP

4

RATKKPCAQAEQYNLAKRP

22

allorf_8005631_8005744

Leader:

MSQVLNLQEMEIPAPEQEQEVEGS

allorf_8005631_8005744

Leader:

MSQVLNLQEMEIPAPEQEQEVEGS

Shared core:

YFICSDASWFLCA

Core with dehydrations:

YFICysDhaDADhaWFLCysA

antiSMASH-DB 4.0 matches for allorf_8005631_8005744

100.0%

NZ_AP018365.1and 8 others:

NZ_AP018365.1 Lanthipeptides: allorf_8005631_8005744_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005631_8005744_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005631_8005744_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptide

Lanthipeptides: allorf_8005631_8005744_lanthipeptide

1

YFICSDASWFLCA

13

YFICSDASWFLCA

1

YFICSDASWFLCA

13

35.0%

NZ_BMUN01000002.1and 14 others:

NZ_BMUN01000002.1 Lanthipeptides: IE238_RS37930_lanthipeptideNZ_CP027297.1 Lanthipeptides: C1N79_RS19645_lanthipeptideNZ_CP027297.1 Lanthipeptides: C1N79_RS36515_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS19350_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS37620_lanthipeptideNZ_CP058693.1 Lanthipeptides: HYQ63_RS44930_lanthipeptideNZ_CP058693.1 Lanthipeptides: HYQ63_RS44925_lanthipeptideNZ_CP104697.1 Lanthipeptides: N6Q81_RS18965_lanthipeptideNZ_CP104697.1 Lanthipeptides: N6Q81_RS18960_lanthipeptideNZ_CP117709.1 Lanthipeptides: PSQ21_RS19060_lanthipeptideNZ_CP117709.1 Lanthipeptides: PSQ21_RS19055_lanthipeptideNZ_JACWAA010000005.1 Lanthipeptides: ICA23_RS27195_lanthipeptideNZ_JACWAA010000005.1 Lanthipeptides: ICA23_RS34925_lanthipeptideNZ_KZ819185.1 Lanthipeptides: DBP22_RS30620_lanthipeptide

Lanthipeptides: IE238_RS05610_lanthipeptide

4

CSDASWFLC

12

CSDASW C

12

CSDASWVFC

20

31.6%

NZ_CP024036.1:

Lanthipeptides: CR091_RS27895_lanthipeptide

5

SDASWFLC

12

S+ SWFLC

12

SNTSWFLC

19

with 3 more sequence matches

31.6%

NZ_CP084585.1:

Lanthipeptides: allorf_0614669_0614794_lanthipeptide

5

SDASWFLC

12

S SWFLC

12

STTSWFLC

19

27.8%

NZ_BNBY01000001.1and 2 others:

NZ_BNBY01000001.1 Lanthipeptides: IE332_RS00510_lanthipeptideNZ_BNBY01000001.1 Lanthipeptides: IE332_RS00505_lanthipeptide

Lanthipeptides: IE332_RS00515_lanthipeptide

4

CSDASWFLC

12

CS++SW C

9

CSNSSWLWC

17

15.4%

NZ_CP061368.1:

Lanthipeptides: IC757_RS01025_lanthipeptide

3

ICSDASWFLCA

13

+C D +W+ C

16

LCPDGTWYQCP

26

allorf_8005707_8005826

Leader:

MRPRAGGEVGPRAGG

allorf_8005707_8005826

Leader:

MRPRAGGEVGPRAGG

Shared core:

ATRGTDASPRRCLRRRGTSWRRCR

Core with dehydrations:

ADhbRGDhbDADhaPRRCysLRRRGDhbDhaWRRCysR

antiSMASH-DB 4.0 matches for allorf_8005707_8005826

100.0%

NZ_AP018365.1and 3 others:

NZ_AP018365.1 Lanthipeptides: allorf_8005707_8005826_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005707_8005826_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005707_8005826_lanthipeptide

Lanthipeptides: allorf_8005707_8005826_lanthipeptide

1

ATRGTDASPRRCLRRRGTSWRRCR

24

ATRGTDASPRRCLRRRGTSWRRCR

1

ATRGTDASPRRCLRRRGTSWRRCR

24

24.4%

NZ_JALGRP010000007.1and 1 other:

NZ_JALGRP010000007.1 Lanthipeptides: allorf_190248_190481_lanthipeptide

Lanthipeptides: allorf_190248_190481_lanthipeptide

5

TDASPRRCLRRRGTSWRR

22

TD + RRC RR G W+R

24

TDVADRRC-RRCGPQWKR

40

23.1%

NZ_BKZV01000001.1:

Lanthipeptides: allorf_0684420_0684575_lanthipeptide

12

CLRRRGTSWR

21

C R R SWR

6

CFRYRPISWR

15

with 3 more sequence matches

18.6%

NZ_ML123085.1and 3 others:

NZ_ML123085.1 Lanthipeptides: allorf_0381774_0381971_lanthipeptideNZ_RDBM01000037.1 Lanthipeptides: allorf_1275501_1275698_lanthipeptideNZ_RDBM01000037.1 Lanthipeptides: allorf_1275501_1275698_lanthipeptide

Lanthipeptides: allorf_0381774_0381971_lanthipeptide

1

ATRGTDASPRRC

12

A RG+ ASP RC

2

ARRGSGASPGRC

13

16.7%

NZ_LMGS01000001.1and 2 others:

NZ_LMJF01000001.1 Lanthipeptides: allorf_1222404_1222598_lanthipeptideNZ_LMJO01000001.1 Lanthipeptides: allorf_0602455_0602649_lanthipeptide

Lanthipeptides: allorf_1210898_1211092_lanthipeptide

9

PRRCLRRRGTSWRRCR

24

PRRC RR RRC+

34

PRRCAARRRDGIRRCK

49

13.7%

NZ_LN850107.1:

Lanthipeptides: BN1701_RS10695_lanthipeptide

2

TRGTDASPRRCLRRRGTSWRRCR

24

GT+ + CL G W R

14

AEGTEGPKQHCLDHIGLVWTDMR

36

allorf_8008609_8008725

Leader:

MRTIVHQSWRSDGLNGRVHPLSIGANLAAS

allorf_8008609_8008725

Leader:

MRTIVHQSWRSDGLNGRVHPLSIGANLAAS

Shared core:

RPRCYVPT

Core with dehydrations:

RPRCysYVPDhb

antiSMASH-DB 4.0 matches for allorf_8008609_8008725

100.0%

NZ_AP018365.1and 3 others:

NZ_AP018365.1 Lanthipeptides: allorf_8008609_8008725_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8008609_8008725_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8008609_8008725_lanthipeptide

Lanthipeptides: allorf_8008609_8008725_lanthipeptide

1

RPRCYVPT

8

RPRCYVPT

1

RPRCYVPT

8

Lanthipeptide(s) for RVR_RS33980

allorf_8002653_8002877

Leader:

MRRHETLLPRRGHAARAVRAVGPLPRRRGARRVPGA

allorf_8002653_8002877

Leader:

MRRHETLLPRRGHAARAVRAVGPLPRRRGARRVPGA

Shared core:

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

Core with dehydrations:

PRRDRDhbGADhbGDhaDhbGADhbRADhbRAPCysADhbGDhbDDVDhaGPRPGHGCys

antiSMASH-DB 4.0 matches for allorf_8002653_8002877

100.0%

NZ_AP018365.1and 3 others:

NZ_AP018365.1 Lanthipeptides: allorf_8002653_8002877_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8002653_8002877_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8002653_8002877_lanthipeptide

Lanthipeptides: allorf_8002653_8002877_lanthipeptide

1

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

38

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

1

PRRDRTGATGSTGATRATRAPCATGTDDVSGPRPGHGC

38

34.2%

NZ_CP033923.1:

Lanthipeptides: EG343_RS10035_lanthipeptide

7

GATGSTGATRATRAPCATGTDDVSGPRP

34

GATGS+ AT A C T + PRP

4

GATGSSSGCDAT-AVCGCVTQTIRIPRP

30

18.4%

NZ_KB976165.1and 1 other:

NZ_MOOT01000054.1 Lanthipeptides: BK765_RS17675_lanthipeptide

Lanthipeptides: ICC_RS37095_lanthipeptide

12

TGATRATRAPCATGT

26

T + +RAPC +GT

3

TSILKVSRAPCKSGT

17

with 1 more sequence matches

13.6%

NZ_CP046514.1and 9 others:

NZ_CP069278.1 Lanthipeptides: allorf_1033752_1033973_lanthipeptideNZ_GL622638.1 Lanthipeptides: allorf_31875_32096_lanthipeptideNZ_JADMSA010000006.1 Lanthipeptides: allorf_049253_049474_lanthipeptideNZ_JADMUN010000007.1 Lanthipeptides: allorf_076793_077014_lanthipeptideNZ_JADNBL010000011.1 Lanthipeptides: allorf_61109_61330_lanthipeptideNZ_JADPBZ010000019.1 Lanthipeptides: allorf_14831_15052_lanthipeptideNZ_JADPCP010000015.1 Lanthipeptides: allorf_17792_18013_lanthipeptideNZ_JAHTKJ010000004.1 Lanthipeptides: allorf_025782_026003_lanthipeptideNZ_NJNX01000015.1 Lanthipeptides: allorf_53588_53809_lanthipeptide

Lanthipeptides: allorf_1935663_1935884_lanthipeptide

16

RATRAPCATGTDDVSGPRP

34

RAT+ PCA RP

4

RATKKPCAQAEQYNLAKRP

22

allorf_8005631_8005744

Leader:

MSQVLNLQEMEIPAPEQEQEVEGS

allorf_8005631_8005744

Leader:

MSQVLNLQEMEIPAPEQEQEVEGS

Shared core:

YFICSDASWFLCA

Core with dehydrations:

YFICysDhaDADhaWFLCysA

antiSMASH-DB 4.0 matches for allorf_8005631_8005744

100.0%

NZ_AP018365.1and 8 others:

NZ_AP018365.1 Lanthipeptides: allorf_8005631_8005744_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005631_8005744_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005631_8005744_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_109527_109640_lanthipeptide

Lanthipeptides: allorf_8005631_8005744_lanthipeptide

1

YFICSDASWFLCA

13

YFICSDASWFLCA

1

YFICSDASWFLCA

13

35.0%

NZ_BMUN01000002.1and 14 others:

NZ_BMUN01000002.1 Lanthipeptides: IE238_RS37930_lanthipeptideNZ_CP027297.1 Lanthipeptides: C1N79_RS19645_lanthipeptideNZ_CP027297.1 Lanthipeptides: C1N79_RS36515_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS19350_lanthipeptideNZ_CP039123.1 Lanthipeptides: E5N77_RS37620_lanthipeptideNZ_CP058693.1 Lanthipeptides: HYQ63_RS44930_lanthipeptideNZ_CP058693.1 Lanthipeptides: HYQ63_RS44925_lanthipeptideNZ_CP104697.1 Lanthipeptides: N6Q81_RS18965_lanthipeptideNZ_CP104697.1 Lanthipeptides: N6Q81_RS18960_lanthipeptideNZ_CP117709.1 Lanthipeptides: PSQ21_RS19060_lanthipeptideNZ_CP117709.1 Lanthipeptides: PSQ21_RS19055_lanthipeptideNZ_JACWAA010000005.1 Lanthipeptides: ICA23_RS27195_lanthipeptideNZ_JACWAA010000005.1 Lanthipeptides: ICA23_RS34925_lanthipeptideNZ_KZ819185.1 Lanthipeptides: DBP22_RS30620_lanthipeptide

Lanthipeptides: IE238_RS05610_lanthipeptide

4

CSDASWFLC

12

CSDASW C

12

CSDASWVFC

20

31.6%

NZ_CP024036.1:

Lanthipeptides: CR091_RS27895_lanthipeptide

5

SDASWFLC

12

S+ SWFLC

12

SNTSWFLC

19

with 3 more sequence matches

31.6%

NZ_CP084585.1:

Lanthipeptides: allorf_0614669_0614794_lanthipeptide

5

SDASWFLC

12

S SWFLC

12

STTSWFLC

19

27.8%

NZ_BNBY01000001.1and 2 others:

NZ_BNBY01000001.1 Lanthipeptides: IE332_RS00510_lanthipeptideNZ_BNBY01000001.1 Lanthipeptides: IE332_RS00505_lanthipeptide

Lanthipeptides: IE332_RS00515_lanthipeptide

4

CSDASWFLC

12

CS++SW C

9

CSNSSWLWC

17

15.4%

NZ_CP061368.1:

Lanthipeptides: IC757_RS01025_lanthipeptide

3

ICSDASWFLCA

13

+C D +W+ C

16

LCPDGTWYQCP

26

allorf_8005707_8005826

Leader:

MRPRAGGEVGPRAGG

allorf_8005707_8005826

Leader:

MRPRAGGEVGPRAGG

Shared core:

ATRGTDASPRRCLRRRGTSWRRCR

Core with dehydrations:

ADhbRGDhbDADhaPRRCysLRRRGDhbDhaWRRCysR

antiSMASH-DB 4.0 matches for allorf_8005707_8005826

100.0%

NZ_AP018365.1and 3 others:

NZ_AP018365.1 Lanthipeptides: allorf_8005707_8005826_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005707_8005826_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8005707_8005826_lanthipeptide

Lanthipeptides: allorf_8005707_8005826_lanthipeptide

1

ATRGTDASPRRCLRRRGTSWRRCR

24

ATRGTDASPRRCLRRRGTSWRRCR

1

ATRGTDASPRRCLRRRGTSWRRCR

24

24.4%

NZ_JALGRP010000007.1and 1 other:

NZ_JALGRP010000007.1 Lanthipeptides: allorf_190248_190481_lanthipeptide

Lanthipeptides: allorf_190248_190481_lanthipeptide

5

TDASPRRCLRRRGTSWRR

22

TD + RRC RR G W+R

24

TDVADRRC-RRCGPQWKR

40

23.1%

NZ_BKZV01000001.1:

Lanthipeptides: allorf_0684420_0684575_lanthipeptide

12

CLRRRGTSWR

21

C R R SWR

6

CFRYRPISWR

15

with 3 more sequence matches

18.6%

NZ_ML123085.1and 3 others:

NZ_ML123085.1 Lanthipeptides: allorf_0381774_0381971_lanthipeptideNZ_RDBM01000037.1 Lanthipeptides: allorf_1275501_1275698_lanthipeptideNZ_RDBM01000037.1 Lanthipeptides: allorf_1275501_1275698_lanthipeptide

Lanthipeptides: allorf_0381774_0381971_lanthipeptide

1

ATRGTDASPRRC

12

A RG+ ASP RC

2

ARRGSGASPGRC

13

16.7%

NZ_LMGS01000001.1and 2 others:

NZ_LMJF01000001.1 Lanthipeptides: allorf_1222404_1222598_lanthipeptideNZ_LMJO01000001.1 Lanthipeptides: allorf_0602455_0602649_lanthipeptide

Lanthipeptides: allorf_1210898_1211092_lanthipeptide

9

PRRCLRRRGTSWRRCR

24

PRRC RR RRC+

34

PRRCAARRRDGIRRCK

49

13.7%

NZ_LN850107.1:

Lanthipeptides: BN1701_RS10695_lanthipeptide

2

TRGTDASPRRCLRRRGTSWRRCR

24

GT+ + CL G W R

14

AEGTEGPKQHCLDHIGLVWTDMR

36

allorf_8008609_8008725

Leader:

MRTIVHQSWRSDGLNGRVHPLSIGANLAAS

allorf_8008609_8008725

Leader:

MRTIVHQSWRSDGLNGRVHPLSIGANLAAS

Shared core:

RPRCYVPT

Core with dehydrations:

RPRCysYVPDhb

antiSMASH-DB 4.0 matches for allorf_8008609_8008725

100.0%

NZ_AP018365.1and 3 others:

NZ_AP018365.1 Lanthipeptides: allorf_8008609_8008725_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8008609_8008725_lanthipeptideNZ_AP018365.1 Lanthipeptides: allorf_8008609_8008725_lanthipeptide

Lanthipeptides: allorf_8008609_8008725_lanthipeptide

1

RPRCYVPT

8

RPRCYVPT

1

RPRCYVPT

8

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 27.49 out of 30.12

Confidence: strong

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.09 out of 30.12

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.72 out of 20.47

Confidence: medium

Additional weak hits (10):

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.17 out of 26.12

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.88 out of 21.84

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.49 out of 30.22

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.63 out of 26.33

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.80 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.39 out of 26.06

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.34 out of 26.12

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.47 out of 28.19

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 14.65 out of 33.14

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 21.16 out of 27.18

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

allorf_8002653_8002877 - Class II

Cleavage pHMM score: -1.70

RODEO score: 0

Monoisotopic mass: 3603.8 Da

Molecular weight: 3605.9 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3623.9 Da N = 1; 3641.9 Da N = 2; 3659.9 Da N = 3; 3677.9 Da N = 4; 3696.0 Da N = 5; 3714.0 Da N = 6; 3732.0 Da N = 7

allorf_8005631_8005744 - Class II

Cleavage pHMM score: -4.50

RODEO score: 0

Monoisotopic mass: 1488.6 Da

Molecular weight: 1489.7 Da

Number of bridges: 2

allorf_8005707_8005826 - Class II

Cleavage pHMM score: -7.10

RODEO score: 0

Monoisotopic mass: 2783.5 Da

Molecular weight: 2785.2 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2803.2 Da N = 1; 2821.2 Da N = 2; 2839.2 Da N = 3

allorf_8008609_8008725 - Class II

Cleavage pHMM score: -4.80

RODEO score: 0

Monoisotopic mass: 972.5 Da

Molecular weight: 973.1 Da

Number of bridges: 1

allorf_8002653_8002877 - Class II

Cleavage pHMM score: -1.70

RODEO score: 0

Monoisotopic mass: 3603.8 Da

Molecular weight: 3605.9 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3623.9 Da N = 1; 3641.9 Da N = 2; 3659.9 Da N = 3; 3677.9 Da N = 4; 3696.0 Da N = 5; 3714.0 Da N = 6; 3732.0 Da N = 7

allorf_8005631_8005744 - Class II

Cleavage pHMM score: -4.50

RODEO score: 0

Monoisotopic mass: 1488.6 Da

Molecular weight: 1489.7 Da

Number of bridges: 2

allorf_8005707_8005826 - Class II

Cleavage pHMM score: -7.10

RODEO score: 0

Monoisotopic mass: 2783.5 Da

Molecular weight: 2785.2 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2803.2 Da N = 1; 2821.2 Da N = 2; 2839.2 Da N = 3

allorf_8008609_8008725 - Class II

Cleavage pHMM score: -4.80

RODEO score: 0

Monoisotopic mass: 972.5 Da

Molecular weight: 973.1 Da

Number of bridges: 1

allorf_8002653_8002877 - Class II

Cleavage pHMM score: -1.70

RODEO score: 0

Monoisotopic mass: 3603.8 Da

Molecular weight: 3605.9 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3623.9 Da N = 1; 3641.9 Da N = 2; 3659.9 Da N = 3; 3677.9 Da N = 4; 3696.0 Da N = 5; 3714.0 Da N = 6; 3732.0 Da N = 7

allorf_8005631_8005744 - Class II

Cleavage pHMM score: -4.50

RODEO score: 0

Monoisotopic mass: 1488.6 Da

Molecular weight: 1489.7 Da

Number of bridges: 2

allorf_8005707_8005826 - Class II

Cleavage pHMM score: -7.10

RODEO score: 0

Monoisotopic mass: 2783.5 Da

Molecular weight: 2785.2 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2803.2 Da N = 1; 2821.2 Da N = 2; 2839.2 Da N = 3

allorf_8008609_8008725 - Class II

Cleavage pHMM score: -4.80

RODEO score: 0

Monoisotopic mass: 972.5 Da

Molecular weight: 973.1 Da

Number of bridges: 1

allorf_8002653_8002877 - Class II

Cleavage pHMM score: -1.70

RODEO score: 0

Monoisotopic mass: 3603.8 Da

Molecular weight: 3605.9 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 3623.9 Da N = 1; 3641.9 Da N = 2; 3659.9 Da N = 3; 3677.9 Da N = 4; 3696.0 Da N = 5; 3714.0 Da N = 6; 3732.0 Da N = 7

allorf_8005631_8005744 - Class II

Cleavage pHMM score: -4.50

RODEO score: 0

Monoisotopic mass: 1488.6 Da

Molecular weight: 1489.7 Da

Number of bridges: 2

allorf_8005707_8005826 - Class II

Cleavage pHMM score: -7.10

RODEO score: 0

Monoisotopic mass: 2783.5 Da

Molecular weight: 2785.2 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 2803.2 Da N = 1; 2821.2 Da N = 2; 2839.2 Da N = 3

allorf_8008609_8008725 - Class II

Cleavage pHMM score: -4.80

RODEO score: 0

Monoisotopic mass: 972.5 Da

Molecular weight: 973.1 Da

Number of bridges: 1

TFBS definitions

Regulator	Description
OsdR	Development and stress management regulator
VqsM	Regulator of quorum-sensing signalling systems

NZ_AP018365.1 - Region 31 - NRPS,T1PKS

Download region GenBank file

Download region SVG

Location: 8,044,760 - 8,100,439 nt. (total: 55,680 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

RVR_RS34155: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS34160: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS34195: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

RVR_RS34240: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase

RVR_RS34185: acetyl-CoA acetyltransferase

smcogs: SMCOG1124: acetyl-CoA acetyltransferase

Hydrolases: esterase hydrolase

RVR_RS34220: thioesterase

smcogs: SMCOG1004: thioesterase

RVR_RS34235: HAD-superfamily hydrolase, subfamily IA, variant

smcogs: SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

Lyases: dehydratase hydratase

RVR_RS34135: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

RVR_RS34165: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase synthetase

RVR_RS34170: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS34205: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS34210: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS34215: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS34225: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

RVR_RS38770: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.76	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.74	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.74	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001261.3	0.73	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.73	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.71	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.70	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.70	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001833.4	0.69	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001132.4	0.69	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001261.3	0.69	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.69	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.68	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.68	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.68	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001758.4	0.68	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 26.61 out of 30.22

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 24.85 out of 30.12

Confidence: medium

Additional weak hits (10):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.95 out of 26.85

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.37 out of 30.25

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.08 out of 20.97

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.70 out of 26.33

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.17 out of 27.55

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.46 out of 32.93

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.67 out of 25.88

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.44 out of 29.65

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.78 out of 27.18

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 23.21 out of 29.65

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 42, location 8044759 - 8100439:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X - Pro) + (redmal) + (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS34170: X

AMP-binding (15..418): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: YARLHGAGEGQRSTGVGGAHEAYGATEVGTITSM
Nearest Stachelhaus code(s):: 2S-Hic GANLIGATIK (29% 8Å match)
Stachelhaus code match:: 70% (weak)

RVR_RS34205: X - Pro

Search NORINE for peptide: strict or relaxed

AMP-binding (223..637): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LTTHFDASVWEGALVLCAECNMYGITETTVHSTH
Nearest Stachelhaus code(s):: Thr DFWSVGMVHK (76% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (1337..1732): Pro

nrpys: Pro

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LWQAFDVSVQETFLLTAGEVNQYGPTETHVAVAH
Nearest Stachelhaus code(s):: Pro DVQFMAQVVK (79% 8Å match); 4Me-Pro DVQFIAHVAK (71% 8Å match)
Stachelhaus code match:: 80% (moderate)

RVR_RS34210: mal

PKS_AT (540..824): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 62.5%; inactive: 54.2%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 133.3
Methoxymalonyl-CoA: 70.4
Methylmalonyl-CoA: 59.6
inactive: 53.1
Propionyl-CoA: 47.4
Ethylmalonyl-CoA: 43.0
Isobutyryl-CoA: 38.4
fatty_acid: 27.8
2-Methylbutyryl-CoA: 23.8
Acetyl-CoA: 21.1
CHC-CoA: 16.2
Benzoyl-CoA: 15.4
trans-1,2-CPDA: 7.1
3-Methylbutyryl-CoA: 2.3

RVR_RS34215: X

AMP-binding (572..921): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: RAFPYDPGMRDTAVRCCGEHNDYGPSEATMVSVS
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ClgR	Caseinolytic protease gene regulator
OsdR	Development and stress management regulator

NZ_AP018365.1 - Region 32 - NRPS,T1PKS

Download region GenBank file

Download region SVG

Location: 8,126,442 - 8,210,090 nt. (total: 83,649 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

RVR_RS34450: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

RVR_RS34480: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: kinase

RVR_RS34460: acetylglutamate kinase

smcogs: SMCOG1174: acetylglutamate kinase

Hydrolases: esterase hydrolase

RVR_RS34425: alpha/beta hydrolase domain-containing protein

smcogs: SMCOG1066: alpha/beta hydrolase domain-containing protein

RVR_RS34510: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: ligase synthase

RVR_RS34465: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

RVR_RS34490: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

RVR_RS34495: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

RVR_RS34505: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

RVR_RS34515: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS34520: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS34525: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs: SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

RVR_RS34535: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS34540: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.94	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.89	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001758.4	0.88	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001833.4	0.87	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.85	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001166.5	0.83	NRPS	HC-toxin	Alternaria jesenskae
BGC0002286.3	0.82	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.81	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001261.3	0.79	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.79	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.77	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001758.4	0.76	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001135.5	0.75	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001833.4	0.75	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002071.2	0.74	NRPS	virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D	Pseudomonas sp. QS1027
BGC0001128.4	0.74	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001166.5	0.73	NRPS	HC-toxin	Alternaria jesenskae
BGC0001133.4	0.73	NRPS	taxlllaid A	Xenorhabdus bovienii SS-2004
BGC0002286.3	0.73	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4	0.72	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.76 out of 23.05

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.07 out of 20.47

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.11 out of 28.19

Confidence: medium

Additional weak hits (18):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 17.35 out of 36.54

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.44 out of 30.25

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.57 out of 26.33

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.69 out of 19.26

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.10 out of 29.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.25 out of 27.78

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.82 out of 18.57

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.47 out of 26.33

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.78 out of 20.97

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.01 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.27 out of 27.78

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.13 out of 24.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.98 out of 29.65

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.28 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.67 out of 26.06

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.70 out of 30.98

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.42 out of 27.04

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.26 out of 26.85

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 43, location 8126441 - 8210090:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Ile - Gln - Ile - D-Gln) + (X - Phe) + (NH2 - X) + (ohmal) + (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS34490: X

AMP-binding (10..419): X

nrpys: Orn, Lys, Arg

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: YWVTSDACLQQAHCFLGGDANVYGPTEATVQVTG
Nearest Stachelhaus code(s):: Arg DPLDFGVVQK (56% 8Å match); Gln DAWQFGVVDK (53% 8Å match); Ile DAQDLGVVDK (50% 8Å match); aIle DALVFGVVLK (47% 8Å match)
Stachelhaus code match:: 70% (weak)

RVR_RS34515: mal

PKS_AT (536..822): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 83.3%; inactive: 66.7%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 149.1
inactive: 74.0
Methoxymalonyl-CoA: 61.5
Methylmalonyl-CoA: 50.4
Propionyl-CoA: 41.4
CHC-CoA: 18.4
Ethylmalonyl-CoA: 16.0
Benzoyl-CoA: 14.1
2-Methylbutyryl-CoA: 12.9
Isobutyryl-CoA: 11.2
fatty_acid: 10.8
trans-1,2-CPDA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

RVR_RS34520: NH2 - X

CAL_domain (43..468): NH2

minowa: NH2

Prediction, score:

NH2: 100.4
fatty_acid: 14.8
AHBA: 6.1
Acetyl-CoA: -2.1
shikimic_acid: -7.0

AMP-binding (1170..1567): X

nrpys: Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LWQLFDFGLQETYLVLGGEVNGYGPTEASINCSM
Nearest Stachelhaus code(s):: Gln DVQIVGGIHK (47% 8Å match)
Stachelhaus code match:: 70% (weak)

RVR_RS34535: X - Phe

Search NORINE for peptide: strict or relaxed

AMP-binding (472..872): X

nrpys: Ile, Val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LDSSFDASTFETFVASGGEHNAYGPTETTTFATL
Nearest Stachelhaus code(s):: Ile DAFFLGVTFK (76% 8Å match); Val DAFFVGGTFK (74% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (1535..1931): Phe

nrpys: Phe

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: Unpolar aromatic ring (Phe, Trp)
Single AA prediction:: phe (Phe)

Stachelhaus prediction details:

Stachelhaus sequence:: MTQAFDAAFWEMTLVLAGEVNAYGPTETTVCATM
Nearest Stachelhaus code(s):: Phe DAWTVAAVCK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

RVR_RS34540: Ile - Gln - Ile - Gln

Search NORINE for peptide: strict or relaxed

AMP-binding (501..901): Ile

nrpys: Ile

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LDSSFDATTFEAFLGAGGELHVYGPTETTTFATR
Nearest Stachelhaus code(s):: Ile DAFFLGVTFK (79% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (1605..2005): Gln

nrpys: Gln

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: glu,gln (Glu, Gln)
Single AA prediction:: gln (Gln)

Stachelhaus prediction details:

Stachelhaus sequence:: HWMTFDASVWELQFLCGGEHNLYGPTEATIDATA
Nearest Stachelhaus code(s):: Gln DAWQFGLIDK (85% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (2715..3128): Ile

nrpys: Ile

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LDSSFDASTFETFLCAGGELHVYGPTETTTFATR
Nearest Stachelhaus code(s):: Ile DAFFLGVTFK (85% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (3789..4216): Gln

nrpys: Gln

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: glu,gln (Glu, Gln)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: HWMTFDASVWELQFLCGGEHNLYGPTEATVDATA
Nearest Stachelhaus code(s):: Gln DAWQFGLVDK (71% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
VqsM	Regulator of quorum-sensing signalling systems
ZuR variant 1	Zinc-responsive repressor

NZ_AP018365.1 - Region 33 - NRPS,NRPS-like,T1PKS

Download region GenBank file

Download region SVG

Location: 8,439,228 - 8,740,152 nt. (total: 300,925 nt) Show pHMM detection rules used

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Oxidoreductases: dehydrogenase oxidase oxidoreductase

RVR_RS35600: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

RVR_RS35640: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

RVR_RS35845: 3-hydroxybutyryl-CoA dehydrogenase

smcogs: SMCOG1095: 3-hydroxybutyryl-CoA dehydrogenase

RVR_RS35855: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

RVR_RS35990: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS36030: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS36035: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

RVR_RS36075: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

RVR_RS36125: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

Transferases: PPTase acetyltransferase acylase

RVR_RS35695: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

RVR_RS35765: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

RVR_RS35945: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

RVR_RS38280: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

RVR_RS38805: acetyl-CoA acetyltransferase

smcogs: SMCOG1124: acetyl-CoA acetyltransferase

RVR_RS38810: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: esterase phosphatase

RVR_RS35860: FkbH like protein

smcogs: SMCOG1256: FkbH like protein

RVR_RS35950: thioesterase

smcogs: SMCOG1004: thioesterase

RVR_RS36080: thioesterase

smcogs: SMCOG1004: thioesterase

Lyases: dehydratase

RVR_RS35605: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase

RVR_RS35660: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS36020: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS36065: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS36070: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS36120: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS38790: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS38795: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS38800: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS38815: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transport

RVR_RS35650: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.94	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0000041.3	0.91	PKS	oronofacic acid	Pseudomonas syringae
BGC0001641.4	0.90	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001276.3	0.90	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0002191.2	0.90	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0002192.3	0.89	PKS	FR901512	fungal sp. No.14919
BGC0002171.2	0.72	NRPS, PKS	pyrophen, campyrone B	Aspergillus niger ATCC 1015
BGC0002275.2	0.72	NRPS, PKS	pyrophen, campyrone B	Aspergillus niger CBS 101883
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001012.3	0.66	NRPS, PKS	meridamycin	Streptomyces violaceusniger

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001132.4	0.69	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.68	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.68	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.67	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002164.2	0.66	NRPS	peramine	Epichloe festucae
BGC0000041.3	0.65	PKS	oronofacic acid	Pseudomonas syringae
BGC0001240.4	0.65	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001641.4	0.65	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001257.3	0.64	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002192.3	0.64	PKS	FR901512	fungal sp. No.14919

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.94 out of 26.85

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.66 out of 23.79

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 17.89 out of 23.79

Confidence: medium

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.77 out of 29.51

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.95 out of 23.79

Confidence: medium

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.52 out of 29.72

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.07 out of 30.12

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 18.46 out of 23.05

Confidence: medium

Additional weak hits (27):

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.11 out of 25.75

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.14 out of 26.12

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.58 out of 26.12

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.10 out of 29.25

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.31 out of 32.74

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.82 out of 21.55

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.57 out of 26.33

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.76 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.75 out of 27.78

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.23 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.69 out of 20.97

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.90 out of 26.06

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.22 out of 27.78

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.46 out of 39.62

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.76 out of 30.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.19 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.72 out of 29.65

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.97 out of 24.78

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.53 out of 21.84

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.35 out of 29.65

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.72 out of 27.18

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.80 out of 24.78

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.46 out of 25.88

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.68 out of 24.78

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.83 out of 25.88

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.14 out of 26.12

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.59 out of 22.40

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 44, location 8439227 - 8740152:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-ohmal - ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal) + (ohmal - Me-ohmal - Me-ohmal - ohmal) + (Me-ohmal - Me-ohmal - redmal) + (redmal - Me-redmal) + (redmal - Me-redmal - Me-ccmal) + (mal - redmal - Me-redmal - Me-redmal) + (Me-ohmal - Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal - Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal - Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal - Me-ohmal - Me-ohmal) + (Me-redmal) + (Ala) + (Me-mal - Me-redmal) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 45, location 8439227 - 8728915:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-ohmal - ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal) + (ohmal - Me-ohmal - Me-ohmal - ohmal) + (Me-ohmal - Me-ohmal - redmal) + (redmal - Me-redmal) + (redmal - Me-redmal - Me-ccmal) + (mal - redmal - Me-redmal - Me-redmal) + (Me-ohmal - Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal - Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal - Me-ohmal - Me-ohmal) + (Me-ohmal - Me-ohmal - Me-ohmal - Me-ohmal) + (Me-redmal) + (Ala) + (Me-mal - Me-redmal) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 46, location 8698343 - 8740152:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Me-mal - Me-redmal) + (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS35660: mmal - mal - mmal

PKS_AT (589..891): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 70.8%; Malonyl-CoA: 66.7%; Methoxymalonyl-CoA: 62.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 150.6
Methoxymalonyl-CoA: 132.8
Ethylmalonyl-CoA: 114.0
2-Methylbutyryl-CoA: 94.3
trans-1,2-CPDA: 78.2
Propionyl-CoA: 74.3
CHC-CoA: 73.2
Malonyl-CoA: 67.6
Isobutyryl-CoA: 66.6
Benzoyl-CoA: 48.1
Acetyl-CoA: 33.0
inactive: 32.3
3-Methylbutyryl-CoA: 28.5
fatty_acid: 16.6

PKS_AT (2104..2386): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 155.1
inactive: 66.8
Methoxymalonyl-CoA: 65.2
Methylmalonyl-CoA: 47.3
Isobutyryl-CoA: 29.3
fatty_acid: 26.9
Ethylmalonyl-CoA: 20.2
Benzoyl-CoA: 16.8
Propionyl-CoA: 15.5
Acetyl-CoA: 15.3
trans-1,2-CPDA: 7.5
3-Methylbutyryl-CoA: 4.5
CHC-CoA: 1.0
2-Methylbutyryl-CoA: 0.0

PKS_AT (3668..3966): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 75.0%; Malonyl-CoA: 70.8%; Methoxymalonyl-CoA: 66.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 158.9
Methoxymalonyl-CoA: 140.9
Ethylmalonyl-CoA: 129.5
2-Methylbutyryl-CoA: 90.3
trans-1,2-CPDA: 84.7
Malonyl-CoA: 78.2
Isobutyryl-CoA: 76.5
Propionyl-CoA: 71.1
CHC-CoA: 67.5
Benzoyl-CoA: 46.3
Acetyl-CoA: 36.6
inactive: 32.9
3-Methylbutyryl-CoA: 32.9
fatty_acid: 17.7

RVR_RS38280: mmal - mmal

PKS_AT (620..908): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 83.3%; Methoxymalonyl-CoA: 83.3%; Ethylmalonyl-CoA: 75.0%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 166.8
Ethylmalonyl-CoA: 156.3
Methoxymalonyl-CoA: 149.9
2-Methylbutyryl-CoA: 115.7
Propionyl-CoA: 93.6
trans-1,2-CPDA: 93.4
Malonyl-CoA: 80.1
CHC-CoA: 68.7
Isobutyryl-CoA: 67.8
3-Methylbutyryl-CoA: 60.3
Benzoyl-CoA: 58.0
Acetyl-CoA: 46.5
inactive: 32.1
fatty_acid: 19.4

PKS_AT (2221..2518): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 195.7
Ethylmalonyl-CoA: 177.0
Methoxymalonyl-CoA: 157.8
2-Methylbutyryl-CoA: 131.7
Propionyl-CoA: 98.7
trans-1,2-CPDA: 93.0
CHC-CoA: 87.8
Malonyl-CoA: 86.6
Isobutyryl-CoA: 63.1
Benzoyl-CoA: 50.0
inactive: 41.2
3-Methylbutyryl-CoA: 32.6
fatty_acid: 24.5
Acetyl-CoA: 20.6

RVR_RS35695: mal - mmal - mmal - mal

PKS_AT (576..858): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 154.9
Methoxymalonyl-CoA: 64.4
inactive: 60.7
Methylmalonyl-CoA: 48.8
Isobutyryl-CoA: 29.2
fatty_acid: 24.5
Acetyl-CoA: 18.0
Propionyl-CoA: 16.6
Benzoyl-CoA: 16.4
Ethylmalonyl-CoA: 15.5
trans-1,2-CPDA: 12.6
CHC-CoA: 10.9
3-Methylbutyryl-CoA: 8.0
2-Methylbutyryl-CoA: 5.9

PKS_AT (2118..2413): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 75.0%; Malonyl-CoA: 70.8%; Methoxymalonyl-CoA: 66.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 155.9
Methoxymalonyl-CoA: 141.9
Ethylmalonyl-CoA: 125.2
trans-1,2-CPDA: 88.1
2-Methylbutyryl-CoA: 87.8
Malonyl-CoA: 73.6
Isobutyryl-CoA: 71.6
Propionyl-CoA: 70.3
CHC-CoA: 60.2
Benzoyl-CoA: 51.7
Acetyl-CoA: 38.8
3-Methylbutyryl-CoA: 34.0
inactive: 33.3
fatty_acid: 18.6

PKS_AT (3672..3964): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 70.8%; Malonyl-CoA: 66.7%; Methoxymalonyl-CoA: 62.5%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 148.0
Methoxymalonyl-CoA: 128.4
Ethylmalonyl-CoA: 112.5
2-Methylbutyryl-CoA: 90.9
Isobutyryl-CoA: 75.4
CHC-CoA: 73.6
Propionyl-CoA: 73.4
trans-1,2-CPDA: 71.4
Malonyl-CoA: 58.8
Benzoyl-CoA: 47.1
Acetyl-CoA: 31.3
3-Methylbutyryl-CoA: 28.3
inactive: 28.1
fatty_acid: 16.8

PKS_AT (5239..5523): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 154.9
inactive: 73.3
Methoxymalonyl-CoA: 64.3
Methylmalonyl-CoA: 46.4
Isobutyryl-CoA: 27.2
fatty_acid: 20.6
Propionyl-CoA: 17.4
Acetyl-CoA: 16.6
Ethylmalonyl-CoA: 15.6
Benzoyl-CoA: 13.6
trans-1,2-CPDA: 8.3
CHC-CoA: 7.5
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

RVR_RS38790: mmal - mmal - mal

PKS_AT (590..892): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 75.0%; Malonyl-CoA: 70.8%; Methoxymalonyl-CoA: 66.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 158.3
Methoxymalonyl-CoA: 140.5
Ethylmalonyl-CoA: 126.9
2-Methylbutyryl-CoA: 89.0
trans-1,2-CPDA: 82.8
Isobutyryl-CoA: 74.9
Malonyl-CoA: 74.1
Propionyl-CoA: 71.5
CHC-CoA: 67.7
Benzoyl-CoA: 49.8
Acetyl-CoA: 40.0
3-Methylbutyryl-CoA: 35.4
inactive: 33.1
fatty_acid: 18.6

PKS_AT (2139..2430): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 83.3%; Methoxymalonyl-CoA: 83.3%; Ethylmalonyl-CoA: 75.0%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 167.3
Ethylmalonyl-CoA: 160.2
Methoxymalonyl-CoA: 149.3
2-Methylbutyryl-CoA: 111.2
trans-1,2-CPDA: 94.6
Malonyl-CoA: 90.4
Propionyl-CoA: 86.5
CHC-CoA: 73.1
Isobutyryl-CoA: 60.5
Acetyl-CoA: 55.2
Benzoyl-CoA: 54.3
3-Methylbutyryl-CoA: 48.8
inactive: 36.8
fatty_acid: 21.3

PKS_AT (3703..3987): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 163.8
inactive: 73.1
Methoxymalonyl-CoA: 72.0
Methylmalonyl-CoA: 56.5
Isobutyryl-CoA: 35.2
fatty_acid: 28.9
Ethylmalonyl-CoA: 20.9
Acetyl-CoA: 17.3
Propionyl-CoA: 16.6
trans-1,2-CPDA: 13.8
Benzoyl-CoA: 13.7
CHC-CoA: 13.5
2-Methylbutyryl-CoA: 6.1
3-Methylbutyryl-CoA: 4.3

RVR_RS35765: mal - mmal

PKS_AT (582..865): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 154.0
inactive: 69.8
Methoxymalonyl-CoA: 68.9
Methylmalonyl-CoA: 51.1
Isobutyryl-CoA: 28.9
fatty_acid: 23.8
Propionyl-CoA: 17.6
Acetyl-CoA: 16.9
Ethylmalonyl-CoA: 16.6
Benzoyl-CoA: 14.0
trans-1,2-CPDA: 11.1
CHC-CoA: 10.6
2-Methylbutyryl-CoA: 3.3
3-Methylbutyryl-CoA: 1.0

PKS_AT (2653..2950): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 194.3
Ethylmalonyl-CoA: 173.7
Methoxymalonyl-CoA: 154.9
2-Methylbutyryl-CoA: 126.1
CHC-CoA: 93.8
trans-1,2-CPDA: 93.5
Propionyl-CoA: 93.2
Malonyl-CoA: 84.8
Benzoyl-CoA: 62.5
Isobutyryl-CoA: 56.1
inactive: 44.2
3-Methylbutyryl-CoA: 36.4
fatty_acid: 30.6
Acetyl-CoA: 22.4

RVR_RS38795: mal - mmal - mmal

PKS_AT (570..853): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 154.4
Methoxymalonyl-CoA: 64.6
inactive: 60.2
Methylmalonyl-CoA: 50.6
Isobutyryl-CoA: 32.6
fatty_acid: 23.4
Acetyl-CoA: 18.0
Benzoyl-CoA: 16.4
Ethylmalonyl-CoA: 15.0
Propionyl-CoA: 14.9
trans-1,2-CPDA: 12.9
CHC-CoA: 10.2
3-Methylbutyryl-CoA: 8.3
2-Methylbutyryl-CoA: 6.3

PKS_AT (2662..2971): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 197.4
Ethylmalonyl-CoA: 179.9
Methoxymalonyl-CoA: 156.6
2-Methylbutyryl-CoA: 113.9
Propionyl-CoA: 91.2
trans-1,2-CPDA: 90.2
CHC-CoA: 87.6
Malonyl-CoA: 87.5
Isobutyryl-CoA: 64.9
Benzoyl-CoA: 54.3
inactive: 36.3
3-Methylbutyryl-CoA: 33.0
fatty_acid: 23.5
Acetyl-CoA: 19.3

PKS_AT (4803..5102): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 75.0%; Methoxymalonyl-CoA: 75.0%; Ethylmalonyl-CoA: 70.8%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 153.3
Methoxymalonyl-CoA: 143.9
Ethylmalonyl-CoA: 139.7
2-Methylbutyryl-CoA: 90.8
Malonyl-CoA: 86.8
Propionyl-CoA: 86.4
trans-1,2-CPDA: 84.0
Isobutyryl-CoA: 70.3
CHC-CoA: 56.8
Benzoyl-CoA: 44.7
3-Methylbutyryl-CoA: 37.3
inactive: 35.7
Acetyl-CoA: 34.8
fatty_acid: 13.1

RVR_RS38800: mal - mal - mmal - mmal

PKS_AT (534..816): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 161.3
inactive: 69.4
Methoxymalonyl-CoA: 66.0
Methylmalonyl-CoA: 48.6
fatty_acid: 27.9
Isobutyryl-CoA: 27.3
Ethylmalonyl-CoA: 18.4
Propionyl-CoA: 18.3
Acetyl-CoA: 16.9
Benzoyl-CoA: 14.6
trans-1,2-CPDA: 11.1
CHC-CoA: 10.7
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

PKS_AT (1559..1850): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 199.2
inactive: 87.3
Methoxymalonyl-CoA: 53.8
Methylmalonyl-CoA: 47.5
Propionyl-CoA: 22.1
Isobutyryl-CoA: 19.8
Acetyl-CoA: 17.9
Ethylmalonyl-CoA: 17.6
fatty_acid: 16.2
Benzoyl-CoA: 9.0
CHC-CoA: 5.7
2-Methylbutyryl-CoA: 1.7
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (3737..4035): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 91.7%; Methoxymalonyl-CoA: 83.3%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 187.8
Ethylmalonyl-CoA: 168.9
Methoxymalonyl-CoA: 158.7
2-Methylbutyryl-CoA: 116.8
Propionyl-CoA: 100.1
trans-1,2-CPDA: 95.6
CHC-CoA: 92.4
Malonyl-CoA: 91.7
Benzoyl-CoA: 69.0
Isobutyryl-CoA: 57.7
inactive: 38.3
3-Methylbutyryl-CoA: 33.1
Acetyl-CoA: 23.4
fatty_acid: 22.2

PKS_AT (5815..6112): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 196.2
Ethylmalonyl-CoA: 178.9
Methoxymalonyl-CoA: 157.5
2-Methylbutyryl-CoA: 131.3
Propionyl-CoA: 98.3
trans-1,2-CPDA: 92.2
CHC-CoA: 88.0
Malonyl-CoA: 87.8
Isobutyryl-CoA: 62.5
Benzoyl-CoA: 50.0
inactive: 39.0
3-Methylbutyryl-CoA: 32.7
fatty_acid: 24.6
Acetyl-CoA: 20.8

RVR_RS36020: mmal - mmal - mmal

PKS_AT (578..876): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 168.5
Ethylmalonyl-CoA: 154.2
Methoxymalonyl-CoA: 151.2
2-Methylbutyryl-CoA: 108.6
CHC-CoA: 93.3
trans-1,2-CPDA: 92.8
Propionyl-CoA: 84.7
Malonyl-CoA: 70.7
Isobutyryl-CoA: 64.6
Acetyl-CoA: 57.1
Benzoyl-CoA: 40.5
3-Methylbutyryl-CoA: 36.4
inactive: 20.9
fatty_acid: 17.6

PKS_AT (2176..2474): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 173.9
Ethylmalonyl-CoA: 168.9
Methoxymalonyl-CoA: 157.6
2-Methylbutyryl-CoA: 107.9
CHC-CoA: 101.1
trans-1,2-CPDA: 98.0
Propionyl-CoA: 93.0
Malonyl-CoA: 85.8
Isobutyryl-CoA: 67.7
Acetyl-CoA: 51.1
Benzoyl-CoA: 46.2
3-Methylbutyryl-CoA: 30.2
fatty_acid: 21.8
inactive: 21.1

PKS_AT (3784..4083): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 169.9
Ethylmalonyl-CoA: 161.0
Methoxymalonyl-CoA: 155.9
2-Methylbutyryl-CoA: 98.2
trans-1,2-CPDA: 96.5
CHC-CoA: 87.7
Malonyl-CoA: 81.5
Propionyl-CoA: 79.7
Isobutyryl-CoA: 76.3
Acetyl-CoA: 57.0
Benzoyl-CoA: 47.4
3-Methylbutyryl-CoA: 32.4
inactive: 32.0
fatty_acid: 15.0

RVR_RS38805: mmal - mmal - mmal - mmal

PKS_AT (609..910): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 174.4
Ethylmalonyl-CoA: 168.9
Methoxymalonyl-CoA: 157.2
2-Methylbutyryl-CoA: 106.3
CHC-CoA: 101.1
trans-1,2-CPDA: 97.5
Propionyl-CoA: 92.7
Malonyl-CoA: 87.8
Isobutyryl-CoA: 73.3
Acetyl-CoA: 48.3
Benzoyl-CoA: 44.3
3-Methylbutyryl-CoA: 30.1
inactive: 20.9
fatty_acid: 17.5

PKS_AT (2205..2503): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 162.2
Methoxymalonyl-CoA: 151.4
Ethylmalonyl-CoA: 150.1
2-Methylbutyryl-CoA: 100.7
trans-1,2-CPDA: 91.9
CHC-CoA: 87.9
Propionyl-CoA: 82.0
Malonyl-CoA: 64.9
Isobutyryl-CoA: 57.3
Acetyl-CoA: 53.9
Benzoyl-CoA: 40.3
3-Methylbutyryl-CoA: 27.3
inactive: 18.7
fatty_acid: 14.1

PKS_AT (3786..4074): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 87.5%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 173.7
Ethylmalonyl-CoA: 168.4
Methoxymalonyl-CoA: 158.3
2-Methylbutyryl-CoA: 107.1
CHC-CoA: 100.8
trans-1,2-CPDA: 98.0
Propionyl-CoA: 92.0
Malonyl-CoA: 85.0
Isobutyryl-CoA: 64.0
Acetyl-CoA: 50.9
Benzoyl-CoA: 46.5
3-Methylbutyryl-CoA: 30.7
fatty_acid: 21.9
inactive: 21.5

PKS_AT (5385..5691): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 91.7%; Methoxymalonyl-CoA: 83.3%; Malonyl-CoA: 79.2%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 183.2
Methoxymalonyl-CoA: 154.6
Ethylmalonyl-CoA: 149.1
2-Methylbutyryl-CoA: 123.1
Propionyl-CoA: 114.5
Malonyl-CoA: 103.4
CHC-CoA: 100.7
trans-1,2-CPDA: 83.1
Isobutyryl-CoA: 74.2
Benzoyl-CoA: 50.2
inactive: 41.1
3-Methylbutyryl-CoA: 38.8
Acetyl-CoA: 36.5
fatty_acid: 26.8

RVR_RS36030: mmal - mmal

PKS_AT (616..922): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 184.3
Ethylmalonyl-CoA: 155.7
Methoxymalonyl-CoA: 155.1
2-Methylbutyryl-CoA: 118.5
Propionyl-CoA: 107.7
Malonyl-CoA: 106.1
CHC-CoA: 103.3
trans-1,2-CPDA: 85.5
Isobutyryl-CoA: 65.2
Benzoyl-CoA: 45.9
inactive: 44.1
Acetyl-CoA: 39.2
3-Methylbutyryl-CoA: 36.6
fatty_acid: 25.1

PKS_AT (2176..2472): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 83.3%; Methoxymalonyl-CoA: 79.2%; Malonyl-CoA: 75.0%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 160.1
Methoxymalonyl-CoA: 140.0
Ethylmalonyl-CoA: 129.6
Malonyl-CoA: 92.4
2-Methylbutyryl-CoA: 87.8
Propionyl-CoA: 86.6
CHC-CoA: 79.4
trans-1,2-CPDA: 77.3
Isobutyryl-CoA: 42.8
Acetyl-CoA: 36.2
Benzoyl-CoA: 35.9
inactive: 33.4
3-Methylbutyryl-CoA: 33.0
fatty_acid: 14.7

RVR_RS36035: mmal - mmal - mmal - mmal

PKS_AT (577..879): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 191.4
Ethylmalonyl-CoA: 169.2
Methoxymalonyl-CoA: 162.2
2-Methylbutyryl-CoA: 131.1
Propionyl-CoA: 119.0
Malonyl-CoA: 114.1
CHC-CoA: 100.0
trans-1,2-CPDA: 90.4
Isobutyryl-CoA: 74.9
Benzoyl-CoA: 55.7
inactive: 46.4
Acetyl-CoA: 39.9
3-Methylbutyryl-CoA: 39.7
fatty_acid: 25.5

PKS_AT (2199..2499): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 183.9
Methoxymalonyl-CoA: 155.2
Ethylmalonyl-CoA: 152.0
2-Methylbutyryl-CoA: 125.0
Propionyl-CoA: 106.6
Malonyl-CoA: 100.9
CHC-CoA: 95.3
trans-1,2-CPDA: 82.9
Isobutyryl-CoA: 63.8
inactive: 43.2
Benzoyl-CoA: 42.3
3-Methylbutyryl-CoA: 36.7
Acetyl-CoA: 34.5
fatty_acid: 23.5

PKS_AT (3768..4069): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 190.2
Ethylmalonyl-CoA: 161.1
Methoxymalonyl-CoA: 159.7
2-Methylbutyryl-CoA: 128.6
Propionyl-CoA: 113.8
Malonyl-CoA: 111.9
CHC-CoA: 100.5
trans-1,2-CPDA: 91.3
Isobutyryl-CoA: 68.4
Benzoyl-CoA: 45.4
inactive: 43.8
3-Methylbutyryl-CoA: 38.0
Acetyl-CoA: 30.9
fatty_acid: 28.1

PKS_AT (5395..5700): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 193.4
Ethylmalonyl-CoA: 170.9
Methoxymalonyl-CoA: 161.7
2-Methylbutyryl-CoA: 136.4
Propionyl-CoA: 108.1
CHC-CoA: 103.9
Malonyl-CoA: 100.6
trans-1,2-CPDA: 91.6
Isobutyryl-CoA: 71.9
Benzoyl-CoA: 56.0
inactive: 49.4
Acetyl-CoA: 40.4
3-Methylbutyryl-CoA: 31.6
fatty_acid: 25.4

RVR_RS38810: mmal - mmal - mmal - mmal

PKS_AT (589..896): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 182.5
Methoxymalonyl-CoA: 158.0
Ethylmalonyl-CoA: 153.9
2-Methylbutyryl-CoA: 118.0
Propionyl-CoA: 108.2
Malonyl-CoA: 106.1
CHC-CoA: 97.1
trans-1,2-CPDA: 86.7
Isobutyryl-CoA: 66.7
Benzoyl-CoA: 53.9
inactive: 45.6
Acetyl-CoA: 34.4
3-Methylbutyryl-CoA: 31.8
fatty_acid: 26.8

PKS_AT (2212..2517): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 184.0
Methoxymalonyl-CoA: 157.7
Ethylmalonyl-CoA: 154.3
2-Methylbutyryl-CoA: 122.4
Propionyl-CoA: 105.2
Malonyl-CoA: 97.3
CHC-CoA: 97.3
trans-1,2-CPDA: 85.2
Isobutyryl-CoA: 65.3
inactive: 45.9
Benzoyl-CoA: 43.2
3-Methylbutyryl-CoA: 38.6
Acetyl-CoA: 35.5
fatty_acid: 22.8

PKS_AT (3793..4095): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 185.8
Methoxymalonyl-CoA: 157.9
Ethylmalonyl-CoA: 153.9
2-Methylbutyryl-CoA: 131.3
Propionyl-CoA: 113.0
Malonyl-CoA: 101.9
CHC-CoA: 99.5
trans-1,2-CPDA: 86.4
Isobutyryl-CoA: 62.0
Benzoyl-CoA: 44.4
inactive: 41.4
3-Methylbutyryl-CoA: 34.8
Acetyl-CoA: 30.9
fatty_acid: 26.8

PKS_AT (5393..5693): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 189.6
Methoxymalonyl-CoA: 162.2
Ethylmalonyl-CoA: 161.9
2-Methylbutyryl-CoA: 129.0
Propionyl-CoA: 110.8
Malonyl-CoA: 109.8
CHC-CoA: 102.5
trans-1,2-CPDA: 86.8
Isobutyryl-CoA: 61.2
Benzoyl-CoA: 42.8
inactive: 41.9
3-Methylbutyryl-CoA: 37.0
Acetyl-CoA: 35.2
fatty_acid: 25.0

RVR_RS38815: mmal

PKS_AT (589..890): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 190.3
Ethylmalonyl-CoA: 164.2
Methoxymalonyl-CoA: 159.7
2-Methylbutyryl-CoA: 126.9
Propionyl-CoA: 116.0
Malonyl-CoA: 105.1
CHC-CoA: 103.3
trans-1,2-CPDA: 101.2
Isobutyryl-CoA: 66.6
Benzoyl-CoA: 53.5
Acetyl-CoA: 42.8
inactive: 42.4
3-Methylbutyryl-CoA: 37.3
fatty_acid: 32.3

RVR_RS36065: Ala

Search NORINE for peptide: strict or relaxed

AMP-binding (515..879): Ala

nrpys: Ala

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: N/A
Single AA prediction:: ala (Ala)

Stachelhaus prediction details:

Stachelhaus sequence:: AHVRFQALVE-LPVAVHGEYSVYAAPGVGSWALS
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

RVR_RS36070: mal

PKS_AT (795..1106): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 185.2
inactive: 86.7
Methoxymalonyl-CoA: 53.6
Methylmalonyl-CoA: 46.4
Propionyl-CoA: 24.4
Acetyl-CoA: 16.2
Benzoyl-CoA: 15.9
Isobutyryl-CoA: 15.6
Ethylmalonyl-CoA: 7.6
fatty_acid: 6.4
2-Methylbutyryl-CoA: 1.1
trans-1,2-CPDA: 0.0
3-Methylbutyryl-CoA: 0.0
CHC-CoA: -3.9

RVR_RS36075: mmal - mmal

PKS_AT (589..887): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Methoxymalonyl-CoA: 95.8%; Ethylmalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 212.2
Ethylmalonyl-CoA: 209.5
Methoxymalonyl-CoA: 173.0
2-Methylbutyryl-CoA: 148.8
trans-1,2-CPDA: 144.6
Propionyl-CoA: 113.4
CHC-CoA: 110.7
Malonyl-CoA: 91.7
Isobutyryl-CoA: 83.8
Benzoyl-CoA: 57.5
Acetyl-CoA: 40.9
fatty_acid: 34.9
3-Methylbutyryl-CoA: 33.6
inactive: 23.4

PKS_AT (1671..1976): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 95.8%; Methoxymalonyl-CoA: 87.5%; Ethylmalonyl-CoA: 83.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 186.3
Methoxymalonyl-CoA: 160.7
Ethylmalonyl-CoA: 158.4
2-Methylbutyryl-CoA: 122.8
Propionyl-CoA: 110.0
Malonyl-CoA: 106.0
CHC-CoA: 98.0
trans-1,2-CPDA: 87.6
Isobutyryl-CoA: 57.6
Benzoyl-CoA: 46.6
inactive: 39.2
3-Methylbutyryl-CoA: 34.6
Acetyl-CoA: 24.2
fatty_acid: 21.1

RVR_RS36120: X

AMP-binding (25..418): X

nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: IDWLWDAFGLDGFLGTGGEHNMYGPVESTIASTD
Nearest Stachelhaus code(s):: Leu DALLVGAIAK (44% 8Å match); Val DALFVGLVAK (44% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
DosR	Hypoxia stress response regulator
IolR	Regulator of the inositol catabolism
NtrC	Nitrogen regulatory protein C
OsdR	Development and stress management regulator
RutR	Regulator of the pyrimidine and purine metabolism

NZ_AP018365.1 - Region 34 - NRP-metallophore,NRPS,T1PKS,betalactone

Download region GenBank file

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Location: 8,753,029 - 8,819,825 nt. (total: 66,797 nt) Show pHMM detection rules used

NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
betalactone: (HMGL-like and AMP-binding)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Hydrolases: esterase

RVR_RS36280: thioesterase

smcogs: SMCOG1004: thioesterase

Isomerases: isomerase

RVR_RS36290: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase synthase

RVR_RS36255: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

RVR_RS36260: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

RVR_RS36265: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS36270: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS36275: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

RVR_RS36295: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

RVR_RS36335: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	1.44	NRPS	enniatin	Fusarium equiseti
BGC0001050.5	1.40	NRPS, PKS	thalassospiramide A	Tistrella bauzanensis
BGC0002135.2	1.40	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001132.4	1.37	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	1.36	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	1.35	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3	1.33	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	1.33	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	1.32	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001135.5	1.32	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0001050.5	0.68	NRPS, PKS	thalassospiramide A	Tistrella bauzanensis
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001132.4	0.67	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.67	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001128.4	0.67	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.66	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.66	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.80 out of 26.33

Confidence: medium

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.16 out of 18.16

Confidence: strong

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 34.36 out of 36.53

Confidence: strong

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.31 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 27.71 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.73 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 29.03 out of 36.53

Confidence: medium

Additional weak hits (15):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.22 out of 26.85

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.63 out of 30.22

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 13.96 out of 27.78

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.20 out of 30.22

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.20 out of 39.62

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.11 out of 21.55

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.49 out of 30.97

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.01 out of 29.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.03 out of 27.78

Confidence: weak

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.78 out of 21.55

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 25.73 out of 36.53

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 14.88 out of 29.38

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.05 out of 35.63

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.15 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.90 out of 28.19

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 47, location 8753028 - 8819825:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Fo-OH-Orn) + (Cys) + (Me-mal) + (fatty_acid)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 48, location 8753028 - 8817892:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (Fo-OH-Orn) + (Cys) + (Me-mal) + (fatty_acid)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

RVR_RS36255: fatty_acid

CAL_domain (782..1196): fatty_acid

minowa: fatty_acid

Prediction, score:

fatty_acid: 15.4
Acetyl-CoA: 8.7
AHBA: 6.1
shikimic_acid: 0.0
NH2: -3.5

RVR_RS36260: mal

PKS_AT (1069..1339): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 101.9
Methoxymalonyl-CoA: 53.9
inactive: 52.7
Methylmalonyl-CoA: 37.7
Ethylmalonyl-CoA: 19.6
fatty_acid: 18.8
Propionyl-CoA: 11.2
Isobutyryl-CoA: 10.3
trans-1,2-CPDA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

RVR_RS36265: Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (472..912): Cys

nrpys: Cys

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: CATTHDMSLFDGNSFLGGDVSVGGPTETTLWNIW
Nearest Stachelhaus code(s):: Cys DMFNFGVLWK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

RVR_RS36270: Fo-OH-Orn

Search NORINE for peptide: strict or relaxed

AMP-binding (506..906): Fo-OH-Orn

nrpys: Fo-OH-Orn

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: Orn and hydroxy-Orn specific (Orn, OH-Orn)
Single AA prediction:: orn (Orn)

Stachelhaus prediction details:

Stachelhaus sequence:: RWQAFDISINELYIWCGGEYHGYGPAETTIGVSC
Nearest Stachelhaus code(s):: Fo-OH-Orn DINYWGGIGK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

RVR_RS36295: diOH-Bz

Search NORINE for peptide: strict or relaxed

AMP-binding (31..441): diOH-Bz

nrpys: diOH-Bz

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: dhb (diOH-Bz)

Stachelhaus prediction details:

Stachelhaus sequence:: NAALFALACPGGALQVGGAQQVFGMAEGLLCLTR
Nearest Stachelhaus code(s):: diOH-Bz PLPAQGVLCK (88% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
AbrC3	Antibiotic production activator
DmdR1	Iron(II)-dependent repressor

NZ_AP018367.1 - Region 1 - T3PKS

Download region GenBank file

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Location: 1 - 32,347 nt. (total: 32,347 nt) Show pHMM detection rules used

Region on contig edge.

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
		NT	AA		NT	AA

Tailoring functions

Ligases: synthase

RVR_RS37045: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	T3PKS	Similarity score	Type	Compound(s)	Organism
BGC0001454.5		0.77	other (other)	germicidin	Streptomyces argillaceus
BGC0000518.3		0.28	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736

Reference	Aggregated	Similarity score	Type	Compound(s)	Organism
BGC0001454.5		0.77	other (other)	germicidin	Streptomyces argillaceus
BGC0000518.3		0.28	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.94 out of 20.97

Confidence: medium

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.16 out of 20.01

Confidence: medium

Additional weak hits (8):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.95 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 15.09 out of 28.14

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.73 out of 27.78

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.11 out of 18.57

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.23 out of 32.74

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.05 out of 20.97

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.09 out of 30.98

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 21.47 out of 35.63

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
ArgR	Regulator of arginine biosynthesis genes
CcpA	Catabolite control protein A