GCF_001905845.1 - 33 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_LIVZ01000001.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	NI-siderophore	245,631	275,400	High	desferrioxamin B/desferrioxamine E	other:other
Region 1.2	melanin	351,722	362,327
Region 1.3	T3PKS	686,004	727,089
Region 1.4	T2PKS,RiPP-like,lanthipeptide-class-i	847,498	934,909	Low	xantholipin	PKS

NZ_LIVZ01000010.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 2.1	T3PKS	28,589	69,656	High	naringenin	PKS:Type III
Region 2.2	lanthipeptide-class-iii,RiPP-like	253,509	275,992

NZ_LIVZ01000011.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	terpene,lanthipeptide-class-i	324,914	356,426	High	planosporicin	ribosomal:RiPP:Lanthipeptide

NZ_LIVZ01000012.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 4.1	terpene,melanin	83,572	104,685	Low	melanin	other:other
Region 4.2	T2PKS	242,807	315,325	High	spore pigment	PKS

NZ_LIVZ01000013.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 5.1	terpene-precursor	151,470	172,522
Region 5.2	NRPS	184,252	230,800	Low	Bisenarsan	PKS:Type I
Region 5.3	crocagin	267,261	295,621

NZ_LIVZ01000014.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 6.1	terpene	15,406	42,240	High	hopene	terpene
Region 6.2	butyrolactone	113,798	124,679

NZ_LIVZ01000018.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 10.1	NRPS-like,NRPS	45,819	95,669	Low	bonnevillamide D/bonnevillamide E	NRPS:Type I

NZ_LIVZ01000019.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 11.1	NRP-metallophore,NRPS	1	50,666	Medium	cahuitamycin A/cahuitamycin B/cahuitamycin C	NRPS:Type I

NZ_LIVZ01000002.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 12.1	NI-siderophore	1	29,821
Region 12.2	terpene	192,191	214,359	High	geosmin	terpene:Sesquiterpene
Region 12.3	RiPP-like	244,597	255,916
Region 12.4	aminopolycarboxylic-acid	326,610	340,031	High	Ethylenediaminesuccinic acid hydroxyarginine	other:other
Region 12.5	T1PKS,NRPS-like,NRPS	380,385	483,126	Low	Q6402A	NRPS:Type I
Region 12.6	T1PKS,PKS-like,butyrolactone,NI-siderophore	600,886	766,345	Low	quartromicin A1	PKS

NZ_LIVZ01000003.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 23.1	azole-containing-RiPP	8,318	38,067	Medium	lactazole	ribosomal:RiPP:Thiopeptide
Region 23.2	NRPS-like,T1PKS,lassopeptide	42,937	89,944	High	lagmysin	ribosomal:RiPP
Region 23.3	RiPP-like	162,099	173,478	Medium	streptamidine	ribosomal:unmodified
Region 23.4	T1PKS	189,578	304,239	Low	ansaseomycin A/ansaseomycin B	PKS
Region 23.5	lanthipeptide-class-iii,RiPP-like	457,802	481,451	High	informatipeptin	ribosomal:RiPP:Lanthipeptide

NZ_LIVZ01000004.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 25.1	redox-cofactor	501,164	523,324

NZ_LIVZ01000005.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 26.1	terpene	42,878	63,975	High	albaflavenone	terpene
Region 26.2	terpene-precursor	73,249	94,415

NZ_LIVZ01000007.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 28.1	ectoine	566,667	577,071	High	ectoine	other:other

NZ_LIVZ01000008.1 (Streptomyces sp. TSRI0107)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 29.1	T1PKS,NRPS-like	11,421	73,735	Medium	sporolide A/sporolide B	NRPS:Type I+PKS:Enediyne type I
Region 29.2	hydrogen-cyanide	334,175	347,216	Low	aborycin	ribosomal:RiPP

No secondary metabolite regions were found in these records:: NZ_LIVZ01000015.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000016.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000017.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000020.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000021.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000022.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000023.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000024.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000025.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000026.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000027.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000028.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000029.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000030.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000006.1 (Streptomyces sp. TSRI0107); NZ_LIVZ01000009.1 (Streptomyces sp. TSRI0107)

Compact view

NZ_LIVZ01000001.1 - Region 1 - NI-siderophore

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Location: 245,631 - 275,400 nt. (total: 29,770 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

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

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

AMK31_RS01150: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

AMK31_RS01180: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: carboxylase transferase

AMK31_RS01190: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

AMK31_RS01195: acetyl-CoA carboxylase, carboxyl transferase,

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

Hydrolases: hydrolase

AMK31_RS01170: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Lyases: decarboxylase

AMK31_RS01155: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Ligases: synthase

AMK31_RS01185: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

Translocases: transporter

AMK31_RS01075: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000940.5	0.85	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0001453.5	0.85	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0000941.3	0.83	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001478.5	0.83	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0002305.2	0.82	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0001572.3	0.70	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0002690.2	0.63	other (other)	FW0622	Verrucosispora sp. FIM060022
BGC0002464.3	0.62	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002620.2	0.60	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina
BGC0002284.3	0.60	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000940.5	0.85	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0001453.5	0.85	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0000941.3	0.83	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001478.5	0.83	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0002305.2	0.82	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0001572.3	0.70	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0002690.2	0.63	other (other)	FW0622	Verrucosispora sp. FIM060022
BGC0002464.3	0.62	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002620.2	0.60	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina
BGC0002284.3	0.60	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f

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: 18.39 out of 19.26

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: 30.11 out of 30.11

Confidence: strong

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 34.36 out of 36.53

Confidence: strong

AfsR

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

Confidence: medium

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 20.26 out of 23.43

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.04 out of 27.04

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.92 out of 27.04

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 30.94 out of 36.53

Confidence: medium

Additional weak hits (7):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.83 out of 21.55

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

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.96 out of 25.75

Confidence: weak

LuxO

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

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.91 out of 39.62

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.41 out of 26.33

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.25 out of 27.18

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
BldD	Development and antibiotic global regulator
CRP	Cyclic AMP receptor protein
CelR	Cellobiose uptake repressor
DasR	N-acetylglucosamine dependent repressor
DmdR1	Iron(II)-dependent repressor

NZ_LIVZ01000001.1 - Region 2 - melanin

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Location: 351,722 - 362,327 nt. (total: 10,606 nt) Show pHMM detection rules used

melanin: melC

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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	0.82	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000911.3	0.81	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000909.3	0.68	other (other)	melanin	Streptomyces avermitilis
BGC0000912.3	0.59	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000908.3	0.48	other (other)	melanin	Streptomyces avermitilis
BGC0000662.5	0.36	terpene	grixazone A	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000885.3	0.31	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000889.5	0.31	other (other)	bagremycin A, bagremycin B	Streptomyces sp. WK-5344
BGC0001592.5	0.30	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	0.82	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000911.3	0.81	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000909.3	0.68	other (other)	melanin	Streptomyces avermitilis
BGC0000912.3	0.59	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000908.3	0.48	other (other)	melanin	Streptomyces avermitilis
BGC0000662.5	0.36	terpene	grixazone A	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000885.3	0.31	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000889.5	0.31	other (other)	bagremycin A, bagremycin B	Streptomyces sp. WK-5344
BGC0001592.5	0.30	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:

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 (5):

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 17.07 out of 21.84

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.53 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.08 out of 27.78

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.17 out of 27.55

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.40 out of 32.74

Confidence: weak

TFBS Finder

TFBS definitions

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

NZ_LIVZ01000001.1 - Region 3 - T3PKS

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Location: 686,004 - 727,089 nt. (total: 41,086 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

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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

AMK31_RS03130: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

Transferases: glycosyltransferase sulfotransferase

AMK31_RS03005: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

AMK31_RS03095: Sulfotransferase domain

extras: Sulfotransfer_3: Sulfotransferase domain

Hydrolases: back translocase

AMK31_RS03080: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

Ligases: synthase

AMK31_RS03100: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Translocases: transport transporter

AMK31_RS03105: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

AMK31_RS03160: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000597.4	0.53	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0000595.3	0.48	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)
BGC0001077.4	0.46	PKS	6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone	Actinoplanes missouriensis 431
BGC0002332.2	0.45	PKS	4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A	Candidatus Entotheonella sp.
BGC0002285.2	0.45	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0002362.3	0.44	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0001940.3	0.42	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax
BGC0000706.3	0.42	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0002439.3	0.41	other (other)	diastaphenazine, izumiphenazine C	Streptomyces diastaticus
BGC0000933.3	0.41	other (other)	xiamenmycin A	Streptomyces xiamenensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000597.4	0.53	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0000595.3	0.48	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)
BGC0001077.4	0.46	PKS	6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone	Actinoplanes missouriensis 431
BGC0002332.2	0.45	PKS	4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A	Candidatus Entotheonella sp.
BGC0002285.2	0.45	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0002362.3	0.44	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0001940.3	0.42	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax
BGC0000706.3	0.42	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0002439.3	0.41	other (other)	diastaphenazine, izumiphenazine C	Streptomyces diastaticus
BGC0000933.3	0.41	other (other)	xiamenmycin A	Streptomyces xiamenensis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.79 out of 21.84

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 (1):

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.00 out of 24.78

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
MexT	Global virulence regulator
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000001.1 - Region 4 - RiPP-like,T2PKS,lanthipeptide-class-i

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Location: 847,498 - 934,909 nt. (total: 87,412 nt) Show pHMM detection rules used

Region on contig edge.

T2PKS: (t2ks and t2clf)
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))
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

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

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

AMK31_RS03860: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS03940: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

AMK31_RS03965: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS04015: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS04030: 3-hydroxyisobutyrate dehydrogenase

smcogs: SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

AMK31_RS04035: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

AMK31_RS04065: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: PPTase acetyltransferase acylase transferase

AMK31_RS03890: acetyl-CoA carboxylase, carboxyl transferase,

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

AMK31_RS03920: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

AMK31_RS03945: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

AMK31_RS04080: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

AMK31_RS04125: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: esterase hydrolase peptidase

AMK31_RS03950: thioesterase

smcogs: SMCOG1004: thioesterase

AMK31_RS04050: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

AMK31_RS04055: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

AMK31_RS04070: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Lyases: cyclase dehydratase

AMK31_RS03985: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

AMK31_RS04005: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

AMK31_RS04150: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

AMK31_RS04155: Lanthionine synthetase C family protein

smcogs: SMCOG1140: Lanthionine synthetase C family protein

Ligases: ligase synthase

AMK31_RS03850: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

AMK31_RS03925: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS03995: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS04000: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS04085: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

Translocases: transport

AMK31_RS04115: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001164.3	0.58	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001268.4	0.49	NRPS, PKS	fusarin C	Fusarium fujikuroi
BGC0002576.2	0.38	ribosomal	mechercharmycin	Thermoactinomyces sp.
BGC0000221.5	0.33	PKS	erdacin	uncultured soil bacterium V167
BGC0001160.5	0.32	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0002277.2	0.32	NRPS	atromentin	Suillus grevillei
BGC0000231.5	0.31	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002284.3	0.31	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000204.5	0.30	PKS	benastatin A, benastatin B, BE-43767, TAN1532B	Streptomyces sp. A2991200
BGC0002477.3	0.30	PKS	thioangucycline A, thioangucycline B	Streptomyces sp. CB00072

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002576.2	0.70	ribosomal	mechercharmycin	Thermoactinomyces sp.
BGC0001164.3	0.66	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.66	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0002277.2	0.65	NRPS	atromentin	Suillus grevillei
BGC0000231.5	0.65	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002286.3	0.63	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001197.5	0.62	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001268.4	0.60	NRPS, PKS	fusarin C	Fusarium fujikuroi
BGC0000234.5	0.60	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000217.5	0.59	PKS	daunorubicin	Streptomyces sp.

Similar known clusters from MIBiG 4.0

Similar subclusters

Lanthipeptide predictions

Lanthipeptide(s) for AMK31_RS04150

AMK31_RS39550

Leader:

MARVTAPLASKALDAPLSDDEWELETTITHSPTPI

Core:

VEACDTSDGCKKTCASSCASS

Core with dehydrations:

VEACysDDhbDhaDGCysKKDhbCysADhaDhaCysADhaDha

antiSMASH-DB 4.0 matches for AMK31_RS39550

71.4%

NZ_CP023202.1and 1 other:

NZ_JAGPXX010000007.1 Lanthipeptides: KBZ10_RS10575_lanthipeptide

Lanthipeptides: SXIN_RS22820_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGCK TCASSCAS+

1

ACGTGDGCKSTCASSCASA

19

68.2%

NZ_AQRK01000063.1:

Lanthipeptides: YUW_RS35350_lanthipeptide

1

VEACDTSDGCKKTCASSCAS

20

V +CDT DGC TCASSCAS

3

VSSCDTGDGCASTCASSCAS

22

66.7%

NC_017765.1:

Lanthipeptides: SHJG_RS39685_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGCK TCASSC S+

1

ACGTGDGCKSTCASSCTSA

19

with 177 more sequence matches

Only the first 10 are displayed here.

66.7%

NZ_BMSX01000004.1:

Lanthipeptides: IE263_RS11225_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGC TCASSCAS+

1

ACGTGDGCASTCASSCASA

19

66.7%

NZ_CM001489.1and 1 other:

NZ_CM001489.1 Lanthipeptides: FRAQA3DRAFT_RS33245_lanthipeptide

Lanthipeptides: FRAQA3DRAFT_RS33245_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

CDTSDGC TC S+CASS

1

GCDTSDGCSSTCPSACASS

19

66.7%

NZ_FAOZ01000022.1:

Lanthipeptides: AWX74_RS26225_lanthipeptide

3

ACDTSDGCKKTCASSCAS

20

ACDTSD C TCAS+CAS

1

ACDTSDTCGSTCASACAS

18

65.2%

NZ_CP012752.1:

Lanthipeptides: AOZ06_RS53910_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

ACDTSDGC TCASSC S+

4

ACDTSDGCDPTCASSCIST

22

65.2%

NZ_QQAU01000011.1:

Lanthipeptides: DFR72_RS30360_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

ACDTSDGC TCASSC S+

4

ACDTSDGCDPTCASSCISA

22

61.9%

NZ_JADMLH010000005.1:

Lanthipeptides: IT780_RS15200_lanthipeptide

2

EACDTSDGCKKTCASSCAS

20

CDT+DGC TCAS+CAS

1

RGCDTNDGCGSTCASACAS

19

61.9%

NZ_JAMTCO010000027.1and 1 other:

NZ_RCDD01000001.1 Lanthipeptides: CLV68_RS12320_lanthipeptide

Lanthipeptides: LV75_RS34630_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGC TCASSC S+

1

ACATDDGCASTCASSCVSN

19

57.1%

NZ_CP095474.1:

Lanthipeptides: MW084_RS03280_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGC TC+SSC S+

1

ACGTGDGCGATCSSSCTSA

19

54.5%

NZ_JAPZVP010000006.1and 1 other:

NZ_JAPZVP010000006.1 Lanthipeptides: O1R50_RS08905_lanthipeptide

Lanthipeptides: O1R50_RS08905_lanthipeptide

5

DTSDGCKKTCASSCAS

20

DTSDGC TCAS+C S

5

DTSDGCGSTCASACTS

20

54.2%

NZ_CP022545.1:

Lanthipeptides: CGL27_RS16770_lanthipeptide

4

CDTSDGCKKTCASSCAS

20

CDTSDGC+ +CASSC S

7

CDTSDGCESSCASSCTS

23

MIBiG 4.0 matches for AMK31_RS39550

9.5%

BGC0000503.5 (cinA):

Lanthipeptide: cinnamycin

10

CKKTCA

15

C+++C+

1

CRQSCS

6

Lanthipeptide(s) for AMK31_RS04175

AMK31_RS39550

Leader:

MARVTAPLASKALDAPLSDDEWELETTITHSPTPI

Core:

VEACDTSDGCKKTCASSCASS

Core with dehydrations:

VEACysDDhbDhaDGCysKKDhbCysADhaDhaCysADhaDha

antiSMASH-DB 4.0 matches for AMK31_RS39550

71.4%

NZ_CP023202.1and 1 other:

NZ_JAGPXX010000007.1 Lanthipeptides: KBZ10_RS10575_lanthipeptide

Lanthipeptides: SXIN_RS22820_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGCK TCASSCAS+

1

ACGTGDGCKSTCASSCASA

19

68.2%

NZ_AQRK01000063.1:

Lanthipeptides: YUW_RS35350_lanthipeptide

1

VEACDTSDGCKKTCASSCAS

20

V +CDT DGC TCASSCAS

3

VSSCDTGDGCASTCASSCAS

22

66.7%

NC_017765.1:

Lanthipeptides: SHJG_RS39685_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGCK TCASSC S+

1

ACGTGDGCKSTCASSCTSA

19

with 177 more sequence matches

Only the first 10 are displayed here.

66.7%

NZ_BMSX01000004.1:

Lanthipeptides: IE263_RS11225_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGC TCASSCAS+

1

ACGTGDGCASTCASSCASA

19

66.7%

NZ_CM001489.1and 1 other:

NZ_CM001489.1 Lanthipeptides: FRAQA3DRAFT_RS33245_lanthipeptide

Lanthipeptides: FRAQA3DRAFT_RS33245_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

CDTSDGC TC S+CASS

1

GCDTSDGCSSTCPSACASS

19

66.7%

NZ_FAOZ01000022.1:

Lanthipeptides: AWX74_RS26225_lanthipeptide

3

ACDTSDGCKKTCASSCAS

20

ACDTSD C TCAS+CAS

1

ACDTSDTCGSTCASACAS

18

65.2%

NZ_CP012752.1:

Lanthipeptides: AOZ06_RS53910_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

ACDTSDGC TCASSC S+

4

ACDTSDGCDPTCASSCIST

22

65.2%

NZ_QQAU01000011.1:

Lanthipeptides: DFR72_RS30360_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

ACDTSDGC TCASSC S+

4

ACDTSDGCDPTCASSCISA

22

61.9%

NZ_JADMLH010000005.1:

Lanthipeptides: IT780_RS15200_lanthipeptide

2

EACDTSDGCKKTCASSCAS

20

CDT+DGC TCAS+CAS

1

RGCDTNDGCGSTCASACAS

19

61.9%

NZ_JAMTCO010000027.1and 1 other:

NZ_RCDD01000001.1 Lanthipeptides: CLV68_RS12320_lanthipeptide

Lanthipeptides: LV75_RS34630_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGC TCASSC S+

1

ACATDDGCASTCASSCVSN

19

57.1%

NZ_CP095474.1:

Lanthipeptides: MW084_RS03280_lanthipeptide

3

ACDTSDGCKKTCASSCASS

21

AC T DGC TC+SSC S+

1

ACGTGDGCGATCSSSCTSA

19

54.5%

NZ_JAPZVP010000006.1and 1 other:

NZ_JAPZVP010000006.1 Lanthipeptides: O1R50_RS08905_lanthipeptide

Lanthipeptides: O1R50_RS08905_lanthipeptide

5

DTSDGCKKTCASSCAS

20

DTSDGC TCAS+C S

5

DTSDGCGSTCASACTS

20

54.2%

NZ_CP022545.1:

Lanthipeptides: CGL27_RS16770_lanthipeptide

4

CDTSDGCKKTCASSCAS

20

CDTSDGC+ +CASSC S

7

CDTSDGCESSCASSCTS

23

MIBiG 4.0 matches for AMK31_RS39550

9.5%

BGC0000503.5 (cinA):

Lanthipeptide: cinnamycin

10

CKKTCA

15

C+++C+

1

CRQSCS

6

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

VqsM

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

Confidence: strong

AfsR

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

Confidence: medium

AfsR

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

Confidence: medium

Additional weak hits (14):

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.92 out of 25.75

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.35 out of 26.06

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 17.90 out of 25.88

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.10 out of 29.25

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.12 out of 29.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.21 out of 30.25

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.92 out of 25.75

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 20.97 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

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.93 out of 23.43

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.09 out of 24.78

Confidence: weak

LuxO

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

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.16 out of 27.04

Confidence: weak

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 21.53 out of 32.38

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

Lanthipeptides

NRPS/PKS substrates

RREFinder

Type II PKS

TFBS Finder

Core peptide predictions

AMK31_RS39550 - Class I

Cleavage pHMM score: -13.30

RODEO score: 18

Monoisotopic mass: 1925.8 Da

Molecular weight: 1927.1 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 1945.1 Da N = 1; 1963.1 Da N = 2; 1981.2 Da N = 3

AMK31_RS39550 - Class I

Cleavage pHMM score: -13.30

RODEO score: 18

Monoisotopic mass: 1925.8 Da

Molecular weight: 1927.1 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 1945.1 Da N = 1; 1963.1 Da N = 2; 1981.2 Da N = 3

NRPS/PKS substrate predictions

AMK31_RS03920: mal

PKS_AT (96..379): mal

ATSignature: Malonyl-CoA

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

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 100.8
Methoxymalonyl-CoA: 65.2
Methylmalonyl-CoA: 53.7
Propionyl-CoA: 49.8
2-Methylbutyryl-CoA: 40.8
inactive: 39.2
Ethylmalonyl-CoA: 22.9
trans-1,2-CPDA: 19.8
CHC-CoA: 11.5
Acetyl-CoA: 10.6
fatty_acid: 5.8
Isobutyryl-CoA: 4.9
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMK31_RS03925: NH2

CAL_domain (39..470): NH2

minowa: NH2

Prediction, score:

NH2: 136.8
fatty_acid: 15.8
AHBA: 13.7
shikimic_acid: 7.9
Acetyl-CoA: -2.0

Link to PARAS substrate predictor

RRE predictions

: RRE type: Goadsporin_CD_RRE; Location: 12 - 112; Score: 45.7; RRE type: NHLP_CD_RRE; Location: 13 - 87; Score: 38.8; RRE type: Cyanobactin_D_RRE; Location: 12 - 86; Score: 28.7

Type II PKS gene cluster prediction details

Cluster section:: 847497 to 920007
Starter unit(s):: malonamyl-CoA (Score: 515.0; E-value: 0)
benzoyl-CoA (Score: 127.0; E-value: 1.76e-36)
Malonyl elongations:: 11|12 (Score: 700.9; E-value: 9e-214)
Product class(es):: pentangular polyphenol
Product molecular weight(s):: benzoyl-CoA_11: 541 Da
benzoyl-CoA_12: 583 Da
malonamyl-CoA_11: 522 Da
malonamyl-CoA_12: 564 Da

AMK31_RS03860: KR (Score: 156.8; E-value: 1.8e-48)
AMK31_RS03920: AT (Score: 186.1; E-value: 2e-57); AT AAF81731.1_Enterocin_benzoyl-CoA (Score: 127.0; E-value: 1.76e-36)
AMK31_RS03960: ACP (Score: 87.2; E-value: 1.3e-27)
AMK31_RS03965: KR C11 (Score: 352.6; E-value: 2.4e-108)
AMK31_RS03985: CYC C4-C21/C2-C23|C2-C19 (Score: 176.3; E-value: 3e-55)
AMK31_RS03990: CYC C5-C18 (Score: 213.8; E-value: 1.5e-66)
AMK31_RS03995: KS (Score: 770.9; E-value: 6.8e-235)
AMK31_RS04000: CLF 11|12 (Score: 700.9; E-value: 9e-214)
AMK31_RS04005: CYC C9-C14 (Score: 256.9; E-value: 1.2e-79)
AMK31_RS04015: KR C19 (Score: 417.0; E-value: 5.7e-128)
AMK31_RS04035: OXY (Score: 295.3; E-value: 2.1e-90)
AMK31_RS04065: OXY (Score: 272.0; E-value: 2.5e-83)
AMK31_RS04070: AMID (Score: 683.1; E-value: 6.6e-208); AMID CAM34350.1_Lysolipin_malonamyl-CoA (Score: 515.0; E-value: 0.0)

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000010.1 - Region 1 - T3PKS

Download region GenBank file

Download region SVG

Location: 28,589 - 69,656 nt. (total: 41,068 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

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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: oxygenase

AMK31_RS26085: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Lyases: dehydratase

AMK31_RS26130: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase

AMK31_RS26080: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

AMK31_RS26115: polyprenol-monophosphomannose synthase ppm1

smcogs: SMCOG1123: polyprenol-monophosphomannose synthase ppm1

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001310.5	0.85	PKS	naringenin	Streptomyces clavuligerus ATCC 27064
BGC0002127.3	0.72	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0000902.4	0.67	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0000285.5	0.61	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000844.5	0.48	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0000280.5	0.48	PKS	2,4-diacetylphloroglucinol	Pseudomonas fluorescens
BGC0000281.3	0.47	PKS	2,4-diacetylphloroglucinol	Pseudomonas fluorescens
BGC0002103.2	0.45	other (other)	pulcherriminic acid	Bacillus subtilis subsp. subtilis str. 168
BGC0002031.3	0.44	other (other)	kitasetaline	Kitasatospora setae KM-6054

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001310.5	0.85	PKS	naringenin	Streptomyces clavuligerus ATCC 27064
BGC0002127.3	0.72	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0000902.4	0.67	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0000285.5	0.61	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000844.5	0.48	other (other)	clavulanic acid	Streptomyces clavuligerus
BGC0000280.5	0.48	PKS	2,4-diacetylphloroglucinol	Pseudomonas fluorescens
BGC0000281.3	0.47	PKS	2,4-diacetylphloroglucinol	Pseudomonas fluorescens
BGC0002103.2	0.45	other (other)	pulcherriminic acid	Bacillus subtilis subsp. subtilis str. 168
BGC0002031.3	0.44	other (other)	kitasetaline	Kitasatospora setae KM-6054

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

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: 20.88 out of 26.85

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.21 out of 23.79

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.58 out of 24.78

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.71 out of 20.47

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 18.36 out of 25.31

Confidence: medium

Additional weak hits (12):

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

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.47 out of 27.78

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.34 out of 39.62

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.30 out of 20.01

Confidence: weak

MexT

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

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.32 out of 29.25

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.05 out of 19.26

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.50 out of 24.78

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.63 out of 25.75

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.05 out of 33.14

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.01 out of 32.93

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

TFBS Finder

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor
IolR	Regulator of the inositol catabolism
LexA variant 2	Repressor of DNA damage response
RutR	Regulator of the pyrimidine and purine metabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000010.1 - Region 2 - RiPP-like,lanthipeptide-class-iii

Download region GenBank file

Download region SVG

Location: 253,509 - 275,992 nt. (total: 22,484 nt) Show pHMM detection rules used

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

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: dehydrogenase oxidoreductase

AMK31_RS27045: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

AMK31_RS27115: dehydrogenase

smcogs: SMCOG1072: dehydrogenase

Transferases: aminotransferase methyltransferase transferase

AMK31_RS27055: methyltransferase

smcogs: SMCOG1248: methyltransferase

AMK31_RS27060: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

AMK31_RS27105: glucose-1-phosphate adenylyl/thymidylyltransferase

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

Lyases: dehydratase

AMK31_RS27110: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002700.2	0.41	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0002111.3	0.37	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000898.5	0.36	saccharide	desosamine, pikromycin, neomethymycin, narbomycin	Streptomyces venezuelae
BGC0000513.3	0.35	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.35	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.34	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000518.3	0.34	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000496.5	0.34	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000501.3	0.33	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000563.4	0.33	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002700.2	0.57	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0002111.3	0.53	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000898.5	0.53	saccharide	desosamine, pikromycin, neomethymycin, narbomycin	Streptomyces venezuelae
BGC0000496.5	0.50	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000513.3	0.50	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.50	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.50	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0000518.3	0.49	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000501.3	0.49	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000563.4	0.49	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712

Similar known clusters from MIBiG 4.0

Similar subclusters

Lanthipeptide predictions

Lanthipeptides - No core peptides found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.21 out of 23.79

Confidence: medium

Additional weak hits (6):

NtrC

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

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.00 out of 31.73

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: 15.41 out of 21.55

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.06 out of 32.93

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.27 out of 29.65

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

No core peptides found.

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism

NZ_LIVZ01000011.1 - Region 1 - lanthipeptide-class-i,terpene

Download region GenBank file

Download region SVG

Location: 324,914 - 356,426 nt. (total: 31,513 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)
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

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: oxygenase

AMK31_RS29085: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

Lyases: cyclase dehydratase

AMK31_RS29080: Terpene synthase/cyclase metal-binding domain protein

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

AMK31_RS29115: Lanthionine synthetase C family protein

smcogs: SMCOG1140: Lanthionine synthetase C family protein

AMK31_RS29120: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000544.4	0.76	ribosomal	planosporicin	Planomonospora alba
BGC0002635.2	0.55	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa
BGC0002576.2	0.46	ribosomal	mechercharmycin	Thermoactinomyces sp.
BGC0001579.4	0.42	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0002640.2	0.41	ribosomal	thalassomonasin A, thalassomonasin B	Thalassomonas actiniarum
BGC0002043.3	0.39	ribosomal	cittilin A, cittilin B	Myxococcus xanthus DK 1622
BGC0001660.3	0.39	ribosomal	mathermycin	Marinactinospora thermotolerans
BGC0001226.4	0.36	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000503.5	0.35	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0000563.4	0.35	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000544.4	0.83	ribosomal	planosporicin	Planomonospora alba
BGC0002576.2	0.76	ribosomal	mechercharmycin	Thermoactinomyces sp.
BGC0002635.2	0.70	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa
BGC0002640.2	0.56	ribosomal	thalassomonasin A, thalassomonasin B	Thalassomonas actiniarum
BGC0000515.4	0.56	ribosomal	geobacillin I	Geobacillus thermodenitrificans NG80-2
BGC0002043.3	0.54	ribosomal	cittilin A, cittilin B	Myxococcus xanthus DK 1622
BGC0000541.5	0.54	ribosomal	paenicidin A	Paenibacillus polymyxa
BGC0000542.3	0.54	ribosomal	paenicidin B	Paenibacillus terrae
BGC0001579.4	0.53	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000556.5	0.53	ribosomal	streptin	Streptococcus pyogenes

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for AMK31_RS29120

AMK31_RS29125

Leader:

MGTHGPAQYDDADLFDLDLEIGVEKSVAGPA

Core:

ITSVSYCTPGCTSDGGGSGCSHCC

Core with dehydrations:

IDhbDhaVDhaYCysDhbPGCysDhbDhaDGGGDhaGCysDhaHCysCys

antiSMASH-DB 4.0 matches for AMK31_RS29125

100.0%

NZ_LIVZ01000011.1:

Lanthipeptides: AMK31_RS29125_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITSVSYCTPGCTSDGGGSGCSHCC

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

95.8%

NZ_FMHI01000015.1and 1 other:

NZ_LIXJ01000007.1 Lanthipeptides: AMK22_RS13160_lanthipeptide

Lanthipeptides: H180DRAFT_RS21560_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITSVSYCTPGCTS+GGGSGCSHCC

1

ITSVSYCTPGCTSEGGGSGCSHCC

24

95.8%

NZ_JACHEM010000003.1:

Lanthipeptides: HNQ79_RS07795_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITSVS+CTPGCTSDGGGSGCSHCC

1

ITSVSWCTPGCTSDGGGSGCSHCC

24

with 103 more sequence matches

Only the first 10 are displayed here.

91.7%

NZ_CP007699.2:

Lanthipeptides: T261_RS08380_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

+TS+SYCTPGCTSDGGGSGCSHCC

1

VTSISYCTPGCTSDGGGSGCSHCC

24

91.7%

NZ_CP048882.1and 1 other:

NZ_CP048882.1 Lanthipeptides: G4Z16_RS06545_lanthipeptide

Lanthipeptides: G4Z16_RS06545_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITS+SYCTPGCTS+GGGSGCSHCC

1

ITSISYCTPGCTSEGGGSGCSHCC

24

91.7%

NZ_JAMHJQ010000009.1and 2 others:

NZ_KN039946.1 Lanthipeptides: FM21_RS35825_lanthipeptideNZ_LIPF01000002.1 Lanthipeptides: AMK11_RS10850_lanthipeptide

Lanthipeptides: M1203_RS22635_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITSVS+CTPGCTS+GGGSGCSHCC

1

ITSVSWCTPGCTSEGGGSGCSHCC

24

91.7%

NZ_JAMTCQ010000009.1:

Lanthipeptides: LY41_RS11610_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

+TSVSYCTPGCTS+GGGSGCSHCC

1

VTSVSYCTPGCTSEGGGSGCSHCC

24

87.5%

NZ_JADDUE010000020.1:

Lanthipeptides: INP57_RS28495_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

+TSVSYCTPGCTS+GGGS CSHCC

1

VTSVSYCTPGCTSEGGGSNCSHCC

24

87.5%

NZ_KB905819.1:

Lanthipeptides: F603_RS34750_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

+TS+SYCTPGCTS+GGGSGCSHCC

1

VTSISYCTPGCTSEGGGSGCSHCC

24

83.3%

NZ_AP023356.1:

Lanthipeptides: Aiant_RS23765_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITSVS CTPGCTS GGGS CS CC

1

ITSVSLCTPGCTSAGGGSQCSFCC

24

79.2%

NZ_AXWW01000016.1and 1 other:

NZ_JAMTCO010000009.1 Lanthipeptides: LV75_RS20160_lanthipeptide

Lanthipeptides: H504_RS39505_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

ITS+S CTPGCTS GGGS CS CC

1

ITSISLCTPGCTSAGGGSNCSFCC

24

79.2%

NZ_FMZZ01000002.1:

Lanthipeptides: BLS56_RS30480_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

+TSVS CTPGCTS GGGS CS CC

1

VTSVSLCTPGCTSPGGGSNCSFCC

24

75.0%

NZ_KI866523.1:

Lanthipeptides: MPTA5024_RS39835_lanthipeptide

1

ITSVSYCTPGCTSDGGGSGCSHCC

24

+TS S CTPGCTS GGGS CS CC

1

VTSWSLCTPGCTSPGGGSNCSFCC

24

MIBiG 4.0 matches for AMK31_RS29125

35.3%

BGC0000535.4 (ADJ56352.1):

Lanthipeptide: nisin A

1

ITSVSYCTPGCTSDGGGSGCS

21

ITS+S CTPGC + G GC+

1

ITSISLCTPGCKT-GALMGCN

20

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Detailed terpene predictions

Product predictions:

No product predictions

Genes with terpene domains:

AMK31_RS29080: T1TS

Domain 1 (36 - 336): Type 1 terpene synthase

Subtype: unknown

Transcription Factor Binding Sites

Binding sites found:

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.52 out of 29.72

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 (4):

MexT

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

Confidence: weak

MexT

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

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.01 out of 20.97

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.47 out of 28.19

Confidence: weak

Lanthipeptides

RREFinder

Terpene

TFBS Finder

Core peptide predictions

AMK31_RS29125 - Class I

Cleavage pHMM score: 13.50

RODEO score: 29

Monoisotopic mass: 2152.8 Da

Molecular weight: 2154.3 Da

Number of bridges: 5

Additional modifications: OH

Alternative weights: (assuming N unmodified Ser/Thr residues); 2172.3 Da N = 1; 2190.4 Da N = 2; 2208.4 Da N = 3

RRE predictions

: RRE type: Lanthipeptide_LanB_RRE; Location: 157 - 253; Score: 57.6

Glossary

No acronyms to display

TFBS definitions

Regulator	Description
NtrC	Nitrogen regulatory protein C
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000012.1 - Region 1 - melanin,terpene

Download region GenBank file

Download region SVG

Location: 83,572 - 104,685 nt. (total: 21,114 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)
melanin: melC

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: oxidoreductase

AMK31_RS29675: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: methyltransferase

AMK31_RS29630: methyltransferase

smcogs: SMCOG1089: methyltransferase

Lyases: cyclase

AMK31_RS29635: 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
BGC0000910.3	1.05	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000911.3	1.03	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000909.3	0.60	other (other)	melanin	Streptomyces avermitilis
BGC0000912.3	0.55	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000908.3	0.54	other (other)	melanin	Streptomyces avermitilis
BGC0000658.3	0.53	terpene	2-methylisoborneol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000659.3	0.53	terpene	2-methylisoborneol	Saccharopolyspora erythraea NRRL 2338
BGC0000657.5	0.41	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0000885.3	0.26	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000662.5	0.21	terpene	grixazone A	Streptomyces griseus subsp. griseus NBRC 13350

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000658.3	0.81	terpene	2-methylisoborneol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000910.3	0.80	other (other)	melanin	Streptomyces coelicolor A3(2)
BGC0000659.3	0.80	terpene	2-methylisoborneol	Saccharopolyspora erythraea NRRL 2338
BGC0000911.3	0.79	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000909.3	0.64	other (other)	melanin	Streptomyces avermitilis
BGC0000912.3	0.61	other (other)	melanin	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000657.5	0.61	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0000908.3	0.61	other (other)	melanin	Streptomyces avermitilis
BGC0000885.3	0.44	other (other)	4-hydroxy-3-nitrosobenzamide	Streptomyces murayamaensis
BGC0000662.5	0.39	terpene	grixazone A	Streptomyces griseus subsp. griseus NBRC 13350

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:

AMK31_RS29635: T1TS

Domain 1 (18 - 345): 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:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.44 out of 23.79

Confidence: medium

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 22.93 out of 27.18

Confidence: medium

AfsQ1

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

Confidence: medium

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.42 out of 20.47

Confidence: medium

Additional weak hits (3):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.85 out of 30.22

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.15 out of 25.88

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.53 out of 27.55

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
2-MeGPP	2-methylgeranyl diphosphate

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
IolR	Regulator of the inositol catabolism
NrdR	Represses ribonucleotide reductase encoding genes
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000012.1 - Region 2 - T2PKS

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Location: 242,807 - 315,325 nt. (total: 72,519 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 oxidoreductase oxygenase

AMK31_RS30375: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

AMK31_RS30405: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

AMK31_RS30565: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

AMK31_RS30590: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS30595: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: glycosyltransferase methyltransferase transferase

AMK31_RS30455: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

AMK31_RS30510: glucose-1-phosphate adenylyl/thymidylyltransferase

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

AMK31_RS30525: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

Hydrolases: glucosidase

AMK31_RS30315: Alpha-glucosidase

smcogs: SMCOG1257: Alpha-glucosidase

Lyases: cyclase decarboxylase dehydratase

AMK31_RS30445: cyclase/dehydrase

smcogs: SMCOG1128: cyclase/dehydrase

AMK31_RS30450: Polyketide synthesis cyclase

smcogs: SMCOG1225: Polyketide synthesis cyclase

AMK31_RS30485: putative carboxymuconolactone decarboxylase

smcogs: SMCOG1298: putative carboxymuconolactone decarboxylase

AMK31_RS30505: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

AMK31_RS30515: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase

AMK31_RS30430: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS30435: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Translocases: transporter

AMK31_RS30300: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000272.3	0.79	PKS	spore pigment	Streptomyces collinus
BGC0000271.5	0.71	PKS	spore pigment	Streptomyces avermitilis
BGC0000215.5	0.70	PKS	curamycin	Streptomyces cyaneus
BGC0002285.2	0.65	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0000231.5	0.61	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002276.2	0.60	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000234.5	0.59	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001513.3	0.55	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000221.5	0.54	PKS	erdacin	uncultured soil bacterium V167
BGC0001723.5	0.54	PKS	oviedomycin	Streptomyces antibioticus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000272.3	0.79	PKS	spore pigment	Streptomyces collinus
BGC0000271.5	0.71	PKS	spore pigment	Streptomyces avermitilis
BGC0000215.5	0.70	PKS	curamycin	Streptomyces cyaneus
BGC0002285.2	0.65	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0000231.5	0.61	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0002276.2	0.60	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000234.5	0.59	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001513.3	0.55	PKS	anthrabenzoxocinone	Actinobacteria bacterium
BGC0000221.5	0.54	PKS	erdacin	uncultured soil bacterium V167
BGC0001723.5	0.54	PKS	oviedomycin	Streptomyces antibioticus

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: 17.99 out of 20.97

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 27.53 out of 30.11

Confidence: strong

CelR

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

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

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.36 out of 23.79

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.46 out of 27.04

Confidence: medium

Additional weak hits (14):

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.99 out of 29.25

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.78 out of 31.73

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.61 out of 27.78

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.41 out of 26.33

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.36 out of 29.38

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.82 out of 39.62

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.21 out of 26.33

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.53 out of 26.06

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.62 out of 29.25

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.04 out of 26.12

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 17.07 out of 27.78

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.34 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.75 out of 28.19

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.09 out of 30.98

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:: 242806 to 315325
Starter unit(s):: acetyl-CoA (Score: 0.0; E-value: 0)
Product class(es):: pentangular polyphenol
tetracenomycin

AMK31_RS30405: OXY (Score: 295.7; E-value: 1.5e-90)
AMK31_RS30425: CYC C5-C18 (Score: 206.6; E-value: 2.4e-64)
AMK31_RS30430: KS (Score: 732.1; E-value: 4e-223)
AMK31_RS30435: CLF (Score: 558.7; E-value: 1.6e-170)
AMK31_RS30440: ACP (Score: 74.1; E-value: 1.6e-23)
AMK31_RS30445: CYC C9-C14 (Score: 249.1; E-value: 3e-77)
AMK31_RS30450: CYC C4-C21/C2-C23|C2-C19 (Score: 157.7; E-value: 1.8e-49)
AMK31_RS30455: MET C6|C8 (Score: 527.9; E-value: 1.9e-161)
AMK31_RS30590: KR (Score: 170.7; E-value: 1.1e-52)

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
CcpA	Catabolite control protein A
CelR	Cellobiose uptake repressor
DasR	N-acetylglucosamine dependent repressor
IolR	Regulator of the inositol catabolism

NZ_LIVZ01000013.1 - Region 1 - terpene-precursor

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Location: 151,470 - 172,522 nt. (total: 21,053 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

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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

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: oxidoreductase

AMK31_RS31435: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

Transferases: kinase

AMK31_RS31485: glycerol kinase

smcogs: SMCOG1210: glycerol kinase

Ligases: synthetase

AMK31_RS31475: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.42	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001910.4	0.39	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0002656.2	0.38	PKS	oryzanaphthopyran A, oryzanaphthopyran B, oryzanaphthopyran C, oryzanthrone A, oryzanthrone B, chlororyzanthrone A, chlororyzanthrone B	Streptacidiphilus oryzae TH49
BGC0001456.3	0.38	terpene	isorenieratene	Streptomyces argillaceus
BGC0001911.3	0.38	terpene	raimonol	Streptomyces anulatus
BGC0000664.5	0.38	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002309.2	0.37	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001227.3	0.37	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000286.3	0.36	PKS	viguiepinol	Streptomyces sp. KO-3988
BGC0000665.5	0.36	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.42	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001910.4	0.39	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0002656.2	0.38	PKS	oryzanaphthopyran A, oryzanaphthopyran B, oryzanaphthopyran C, oryzanthrone A, oryzanthrone B, chlororyzanthrone A, chlororyzanthrone B	Streptacidiphilus oryzae TH49
BGC0001456.3	0.38	terpene	isorenieratene	Streptomyces argillaceus
BGC0001911.3	0.38	terpene	raimonol	Streptomyces anulatus
BGC0000664.5	0.38	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002309.2	0.37	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001227.3	0.37	terpene	isorenieratene	Streptomyces collinus Tu 365
BGC0000286.3	0.36	PKS	viguiepinol	Streptomyces sp. KO-3988
BGC0000665.5	0.36	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576

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:

AMK31_RS31475: PT_FPPS_like

Domain 1 (48 - 345): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

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

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (6):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.17 out of 29.38

Confidence: weak

LexA variant 1

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

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.67 out of 23.43

Confidence: weak

LexA variant 1

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

Confidence: weak

HypR

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

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 20.20 out of 30.98

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

NZ_LIVZ01000013.1 - Region 2 - NRPS

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Location: 184,252 - 230,800 nt. (total: 46,549 nt) Show pHMM detection rules used

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

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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 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

AMK31_RS31785: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: formyltransferase

AMK31_RS31740: methionyl-tRNA formyltransferase

smcogs: SMCOG1228: methionyl-tRNA formyltransferase

Hydrolases: hydrolase

AMK31_RS31810: alpha/beta hydrolase domain-containing protein

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

AMK31_RS31815: alpha/beta hydrolase domain-containing protein

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

Ligases: ligase

AMK31_RS31730: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001166.5	0.65	NRPS	HC-toxin	Alternaria jesenskae
BGC0001132.4	0.65	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4	0.64	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001135.5	0.66	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001166.5	0.65	NRPS	HC-toxin	Alternaria jesenskae
BGC0001132.4	0.65	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4	0.64	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

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: 18.92 out of 20.47

Confidence: medium

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.31 out of 18.46

Confidence: strong

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.03 out of 29.72

Confidence: medium

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 25.37 out of 30.12

Confidence: medium

Additional weak hits (11):

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.36 out of 36.53

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

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.88 out of 32.74

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 20.42 out of 33.73

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.14 out of 30.25

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.78 out of 31.73

Confidence: weak

HypR

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

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.37 out of 24.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.03 out of 29.65

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.54 out of 20.01

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.86 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 2, location 184251 - 230800:

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

Polymer prediction:: (D-X - Pro)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS31730: X - Pro

Search NORINE for peptide: strict or relaxed

AMP-binding (18..429): X

nrpys: Val, aIle

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:: FDPVFDALSYDVFLLTGGEGHVYGPTECTTFTTR
Nearest Stachelhaus code(s):: Val or aIle DAYFLGVTFK (71% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1544..1973): 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:: LWHTFDVATQETFAVQAGEHNHYGPAETHVVTAG
Nearest Stachelhaus code(s):: Pro DVQFVAHVVK (65% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
NtrC	Nitrogen regulatory protein C
OsdR	Development and stress management regulator
RpoN	Regulator of nitrogen assimilation and virulence
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000013.1 - Region 3 - crocagin

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Location: 267,261 - 295,621 nt. (total: 28,361 nt) Show pHMM detection rules used

crocagin: (PhyH and Carbam_trans_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: reductase

AMK31_RS32025: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

Transferases: methyltransferase

AMK31_RS32045: methyltransferase

smcogs: SMCOG1089: methyltransferase

AMK31_RS42330: methyltransferase

smcogs: SMCOG1089: methyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000820.5	0.49	other (other)	physostigmine	Streptomyces griseofuscus
BGC0002659.2	0.45	ribosomal	TvgA-RiPP	Halomonas anticariensis FP35 = DSM 16096
BGC0001488.3	0.44	other (other)	4-formylaminooxyvinylglycine	Pseudomonas fluorescens WH6
BGC0000188.5	0.43	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0002127.3	0.43	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0000902.4	0.41	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0001810.3	0.41	PKS	trehangelin	Polymorphospora rubra
BGC0000719.5	0.41	saccharide	tobramycin	Streptoalloteichus hindustanus
BGC0000720.3	0.40	saccharide	tobramycin	Streptoalloteichus tenebrarius
BGC0001736.3	0.40	NRPS	pepteridine A, pepteridine B	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000820.5	0.49	other (other)	physostigmine	Streptomyces griseofuscus
BGC0002659.2	0.45	ribosomal	TvgA-RiPP	Halomonas anticariensis FP35 = DSM 16096
BGC0001488.3	0.44	other (other)	4-formylaminooxyvinylglycine	Pseudomonas fluorescens WH6
BGC0000188.5	0.43	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3
BGC0002127.3	0.43	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0000902.4	0.41	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0001810.3	0.41	PKS	trehangelin	Polymorphospora rubra
BGC0000719.5	0.41	saccharide	tobramycin	Streptoalloteichus hindustanus
BGC0000720.3	0.40	saccharide	tobramycin	Streptoalloteichus tenebrarius
BGC0001736.3	0.40	NRPS	pepteridine A, pepteridine B	Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

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

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):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 20.70 out of 32.74

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.78 out of 29.65

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: 19.95 out of 29.65

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.13 out of 35.63

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.91 out of 29.65

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000014.1 - Region 1 - terpene

Download region GenBank file

Download region SVG

Location: 15,406 - 42,240 nt. (total: 26,835 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

AMK31_RS32195: dehydrogenase

smcogs: SMCOG1181: dehydrogenase

AMK31_RS32230: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Transferases: aminotransferase transferase

AMK31_RS32190: glucose-1-phosphate adenylyl/thymidylyltransferase

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

AMK31_RS32265: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Lyases: dehydratase

AMK31_RS32180: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase synthetase

AMK31_RS32235: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

AMK31_RS32260: 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	0.82	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0000647.3	0.57	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000664.5	0.52	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001839.3	0.51	terpene	squalestatin S1	Aspergillus sp. Z5
BGC0002591.2	0.51	PKS, terpene	aurachin C, aurachin D, aurachin SS	Streptomyces sp.
BGC0000656.5	0.50	terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0002610.3	0.49	terpene	stellatic acid	Aspergillus stellatus
BGC0002162.3	0.49	terpene	sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8	Aspergillus fischeri NRRL 181
BGC0000630.3	0.49	terpene	(2R,3S,3'S)-2-hydroxyastaxanthin	Paracoccus haeundaensis
BGC0000651.5	0.49	terpene	KS-505a	Streptomyces argenteolus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000663.5	0.82	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0000647.3	0.57	terpene	carotenoid	Rhodobacter sphaeroides
BGC0000664.5	0.52	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001839.3	0.51	terpene	squalestatin S1	Aspergillus sp. Z5
BGC0002591.2	0.51	PKS, terpene	aurachin C, aurachin D, aurachin SS	Streptomyces sp.
BGC0000656.5	0.50	terpene	zeaxanthin	Xanthobacter autotrophicus Py2
BGC0002610.3	0.49	terpene	stellatic acid	Aspergillus stellatus
BGC0002162.3	0.49	terpene	sesterfisherol, sesterfisheric acid, compound 6, compound 7a, compound 5, compound 8	Aspergillus fischeri NRRL 181
BGC0000630.3	0.49	terpene	(2R,3S,3'S)-2-hydroxyastaxanthin	Paracoccus haeundaensis
BGC0000651.5	0.49	terpene	KS-505a	Streptomyces argenteolus

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:

AMK31_RS32220: PT_phytoene_like

Domain 1 (17 - 287): Prenyltransferase; Phytoene synthase like

Subtype: Hydroxysqualene synthase

Reactions:: PSPP → hydroxysqualene

AMK31_RS32225: PT_phytoene_like

Domain 1 (17 - 309): Prenyltransferase; Phytoene synthase like

Subtype: unknown

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

AMK31_RS32235: PT_FPPS_like

Domain 1 (84 - 377): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

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

AMK31_RS32240: T2TS

Domain 1 (23 - 654): Type 2 terpene synthase

Subtype: Squalene substrate

Reactions:: squalene → hopanoid; squalene → polypodane

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.31 out of 18.46

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.31 out of 18.46

Confidence: strong

RpoN

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

Confidence: medium

Additional weak hits (9):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.79 out of 21.55

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.90 out of 27.78

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.39 out of 32.74

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 19.15 out of 30.25

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.60 out of 26.12

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.83 out of 20.97

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.72 out of 28.19

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.34 out of 27.18

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.74 out of 23.43

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
RpoN	Regulator of nitrogen assimilation and virulence

NZ_LIVZ01000014.1 - Region 2 - butyrolactone

Download region GenBank file

Download region SVG

Location: 113,798 - 124,679 nt. (total: 10,882 nt) Show pHMM detection rules used

butyrolactone: AfsA

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: dehydrogenase

AMK31_RS32665: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

AMK31_RS32670: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000850.5	0.60	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0000849.4	0.59	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001928.2	0.49	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0002404.2	0.46	other (other)	falcarindiol	Solanum lycopersicum
BGC0001633.3	0.41	other (other)	ketomemicin B3, ketomemicin B4	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0002578.2	0.41	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0002227.3	0.40	NRPS	AKML B, AKML D, AKML A, AKML C	Aspergillus luchuensis IFO 4308
BGC0002805.2	0.40	other (other)	Azodyrecin A, Azodyrecin B, Azodyrecin C	Streptomyces mirabilis strain P8-A
BGC0002194.3	0.40	PKS	epipyrone A	Epicoccum nigrum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000850.5	0.60	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0000849.4	0.59	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001928.2	0.49	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0002404.2	0.46	other (other)	falcarindiol	Solanum lycopersicum
BGC0001633.3	0.41	other (other)	ketomemicin B3, ketomemicin B4	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0002578.2	0.41	other (other)	gaburedin A, gaburedin B, gaburedin C, gaburedin D, gaburedin E, gaburedin F	Streptomyces venezuelae ATCC 10712
BGC0002227.3	0.40	NRPS	AKML B, AKML D, AKML A, AKML C	Aspergillus luchuensis IFO 4308
BGC0002805.2	0.40	other (other)	Azodyrecin A, Azodyrecin B, Azodyrecin C	Streptomyces mirabilis strain P8-A
BGC0002194.3	0.40	PKS	epipyrone A	Epicoccum nigrum

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (6):

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.29 out of 33.73

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.12 out of 30.25

Confidence: weak

HypR

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

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.04 out of 27.04

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.12 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.36 out of 26.06

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description

NZ_LIVZ01000018.1 - Region 1 - NRPS,NRPS-like

Download region GenBank file

Download region SVG

Location: 45,819 - 95,669 nt. (total: 49,851 nt) Show pHMM detection rules used

NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
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

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: oxygenase

AMK31_RS36140: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: aminotransferase methyltransferase

AMK31_RS36185: aminotransferase

smcogs: SMCOG1019: aminotransferase

AMK31_RS36240: methyltransferase

smcogs: SMCOG1089: methyltransferase

Hydrolases: esterase

AMK31_RS36125: thioesterase

smcogs: SMCOG1004: thioesterase

AMK31_RS36150: thioesterase

smcogs: SMCOG1004: thioesterase

Lyases: hydratase lyase

AMK31_RS36100: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

AMK31_RS36130: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase

AMK31_RS36135: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

AMK31_RS36145: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS36165: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.85	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002075.3	0.84	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.78	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.76	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.75	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.71	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002164.2	0.69	NRPS	peramine	Epichloe festucae
BGC0001261.3	0.68	NRPS	AM-toxin	Alternaria alternata

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002075.3	0.73	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.71	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.70	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.68	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.68	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001758.4	0.68	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0002164.2	0.68	NRPS	peramine	Epichloe festucae
BGC0001261.3	0.67	NRPS	AM-toxin	Alternaria alternata

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: 18.92 out of 20.47

Confidence: medium

AfsR

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

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

Additional weak hits (11):

MexT

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

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.24 out of 31.73

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.73 out of 30.22

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.70 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.41 out of 29.38

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.42 out of 29.51

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 17.44 out of 31.73

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.10 out of 30.98

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.37 out of 28.19

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.48 out of 35.63

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.93 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 1, location 45818 - 95669:

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

Polymer prediction:: (Val) + (Thr - X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 45818 - 87582:

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

Polymer prediction:: (Val) + (Thr - X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 49861 - 95669:

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

Polymer prediction:: (Val) + (Thr - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS36145: Val

Search NORINE for peptide: strict or relaxed

AMP-binding (8..402): 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:: LDAAFDASTLEGWLLAGGDANGYGPTENATFTTV
Nearest Stachelhaus code(s):: Val DALWLGGTFK (85% 8Å match); bOH-Val DALWLGGTFK (79% 8Å match)
Stachelhaus code match:: 100% (strong)

AMK31_RS36165: Thr - X

Search NORINE for peptide: strict or relaxed

AMP-binding (19..419): 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:: LETHFDFSVWEGSQVFGGEVNMYGITEITVHATH
Nearest Stachelhaus code(s):: Thr DFWSVGMVHK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1083..1483): X

nrpys: Asp, Asn, Glu, Gln, Aad

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 with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: RDVTFDPSVREAFIGTGGEVNQYGPTENTMMSCV
Nearest Stachelhaus code(s):: Glu DPRSLSQMAK (59% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CRP	Cyclic AMP receptor protein
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000019.1 - Region 1 - NRP-metallophore,NRPS

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Location: 1 - 50,666 nt. (total: 50,666 nt) Show pHMM detection rules used

Region on contig edge.

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)

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

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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: oxygenase

AMK31_RS36525: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

Transferases: aminotransferase formyltransferase

AMK31_RS36530: methionyl-tRNA formyltransferase

smcogs: SMCOG1228: methionyl-tRNA formyltransferase

AMK31_RS36615: DegT/DnrJ/EryC1/StrS aminotransferase

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

Hydrolases: hydrolase

AMK31_RS36570: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Isomerases: isomerase

AMK31_RS36580: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase

AMK31_RS36540: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS36545: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS36550: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS36555: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS36585: 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	0.79	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001261.3	0.75	NRPS	AM-toxin	Alternaria alternata
BGC0001050.5	0.75	NRPS, PKS	thalassospiramide A	Tistrella bauzanensis
BGC0001351.3	0.73	NRPS	cahuitamycin A, cahuitamycin B, cahuitamycin C	Streptomyces gandocaensis
BGC0001135.5	0.72	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001833.4	0.72	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0000342.4	0.72	NRPS	enniatin	Fusarium equiseti
BGC0001166.5	0.71	NRPS	HC-toxin	Alternaria jesenskae
BGC0001132.4	0.70	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.69	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.71	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0001050.5	0.70	NRPS, PKS	thalassospiramide A	Tistrella bauzanensis
BGC0001351.3	0.69	NRPS	cahuitamycin A, cahuitamycin B, cahuitamycin C	Streptomyces gandocaensis
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001833.4	0.69	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0001166.5	0.68	NRPS	HC-toxin	Alternaria jesenskae
BGC0001132.4	0.68	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001825.4	0.68	NRPS	xenematide	Xenorhabdus nematophila AN6/1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.86 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 31.07 out of 36.53

Confidence: medium

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 30.90 out of 36.53

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

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.99 out of 20.47

Confidence: medium

Additional weak hits (11):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.76 out of 26.33

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.95 out of 36.53

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 23.71 out of 36.53

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.05 out of 26.85

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 22.41 out of 36.53

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 21.24 out of 36.53

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.30 out of 36.53

Confidence: weak

HipB

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

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.99 out of 29.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.52 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.28 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 1, location 0 - 50666:

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

Polymer prediction:: (X) + (D-OH-Orn) + (Ser - D-Orn) + (Ser)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS36540: Ser

Search NORINE for peptide: strict or relaxed

AMP-binding (566..957): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: TDLSFDLSVYDGNCLLGGDAGLGGTTETAIHSTV
Nearest Stachelhaus code(s):: Ser DLYNLGLIHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMK31_RS36545: Ser - Orn

Search NORINE for peptide: strict or relaxed

AMP-binding (515..920): Ser

nrpys: Ser

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:: ser (Ser)
Single AA prediction:: ser (Ser)

Stachelhaus prediction details:

Stachelhaus sequence:: RWMTFDVSVWEWHFICSGEHNLYGPTEAAVDVTA
Nearest Stachelhaus code(s):: Ser DVWHISLVDK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1567..1965): Orn

nrpys: 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:: RWQAFDISVNELYLWCGGEYHGYGPAEATIGVSH
Nearest Stachelhaus code(s):: Orn DINYWGGIGK (100% 8Å match); Fo-OH-Orn DINYWGGIGK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMK31_RS36550: OH-Orn

Search NORINE for peptide: strict or relaxed

AMP-binding (472..873): OH-Orn

nrpys: OH-Orn

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:: LAHWFDASWQPWELGVGGEHNLYGPTECTVDSAD
Nearest Stachelhaus code(s):: OH-Orn DAQEGGLVDK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

AMK31_RS36555: X

AMP-binding (458..849): 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:: N/A
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: RWGSFVDGLTEGTAISSGEVNLYGCSEAAGDSLF
Nearest Stachelhaus code(s):: bAla VDTVISLGDK (59% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMK31_RS36585: X

AMP-binding (31..436): X

nrpys: (unknown)

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:: NASLFALACPGGAVQVGGSQQVFGMAEGLLNYTR
Nearest Stachelhaus code(s):: Sal PLPAQGVLNK (91% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
DmdR1	Iron(II)-dependent repressor
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000002.1 - Region 1 - NI-siderophore

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Location: 1 - 29,821 nt. (total: 29,821 nt) Show pHMM detection rules used

Region on contig edge.

NI-siderophore: IucA_IucC

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

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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 oxygenase

AMK31_RS04200: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS04245: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Transferases: aminotransferase

AMK31_RS04290: aminotransferase

smcogs: SMCOG1019: aminotransferase

Isomerases: mutase

AMK31_RS04295: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000902.4	0.49	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0002127.3	0.47	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0000946.5	0.46	other (other)	vibrioferrin	Vibrio parahaemolyticus
BGC0000285.5	0.44	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0001605.3	0.44	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0001485.4	0.43	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0001223.5	0.42	other (other)	hydroxysporine	uncultured bacterium
BGC0001197.5	0.42	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001529.5	0.42	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

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0000902.4	0.49	PKS	flaviolin	Saccharopolyspora erythraea NRRL 2338
BGC0002127.3	0.47	PKS	flaviolin, 1,3,6,8-tetrahydroxynaphthalene	Streptomyces coelicolor A3(2)
BGC0000946.5	0.46	other (other)	vibrioferrin	Vibrio parahaemolyticus
BGC0000285.5	0.44	PKS, saccharide	flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin	Saccharopolyspora erythraea
BGC0001605.3	0.44	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0001485.4	0.43	other (other)	chuangxinmycin	Actinoplanes tsinanensis
BGC0001223.5	0.42	other (other)	hydroxysporine	uncultured bacterium
BGC0001197.5	0.42	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001529.5	0.42	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

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: 20.58 out of 23.05

Confidence: strong

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 29.30 out of 30.12

Confidence: strong

Additional weak hits (10):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.91 out of 26.06

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.46 out of 31.73

Confidence: weak

MexT

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

Confidence: weak

ANR

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

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.55 out of 30.25

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.33 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.96 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.52 out of 26.06

Confidence: weak

NuR

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

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.11 out of 32.93

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
OsdR	Development and stress management regulator

NZ_LIVZ01000002.1 - Region 2 - terpene

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Location: 192,191 - 214,359 nt. (total: 22,169 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

Hydrolases: peptidase protease

AMK31_RS05070: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

AMK31_RS05125: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

Lyases: cyclase

AMK31_RS05110: 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	0.85	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0000850.5	0.48	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0000849.4	0.45	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0000595.3	0.41	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)
BGC0000597.4	0.39	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0000847.4	0.36	other (non-nrp beta-lactam)	thienamycin	Streptomyces cattleya
BGC0000937.5	0.35	other (other)	fosfazinomycin A, fosfazinomycin B	Streptomyces sp. WM6372
BGC0000842.5	0.34	other (non-nrp beta-lactam)	carbapenem MM4550	Streptomyces argenteolus
BGC0000197.5	0.32	PKS, saccharide	aranciamycin	Streptomyces echinatus
BGC0002657.2	0.31	NRPS, PKS	deoxyhangtaimycin	Streptomyces spectabilis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001181.4	0.85	terpene	geosmin	Streptomyces coelicolor A3(2)
BGC0000850.5	0.48	other (other)	γ-butyrolactone	Streptomyces acidiscabies
BGC0000849.4	0.45	other (butyrolactone)	SCB1, SCB2, SCB3	Streptomyces coelicolor A3(2)
BGC0000595.3	0.41	ribosomal	SCO-2138	Streptomyces coelicolor A3(2)
BGC0000597.4	0.39	ribosomal	SWA-2138	Streptomyces sp. e14
BGC0000847.4	0.36	other (non-nrp beta-lactam)	thienamycin	Streptomyces cattleya
BGC0000937.5	0.35	other (other)	fosfazinomycin A, fosfazinomycin B	Streptomyces sp. WM6372
BGC0000842.5	0.34	other (non-nrp beta-lactam)	carbapenem MM4550	Streptomyces argenteolus
BGC0000197.5	0.32	PKS, saccharide	aranciamycin	Streptomyces echinatus
BGC0002657.2	0.31	NRPS, PKS	deoxyhangtaimycin	Streptomyces spectabilis

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:

AMK31_RS05110: T1TS + T1TS

Domain 1 (2 - 325): Type 1 terpene synthase

Subtype: Geosmin synthase, N terminal domain

Reactions:: FPP → germacradienol

Domain 2 (326 - 695): 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: 17.83 out of 20.47

Confidence: medium

Additional weak hits (5):

ANR

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

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.92 out of 26.33

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.00 out of 27.55

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.55 out of 29.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.51 out of 30.25

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000002.1 - Region 3 - RiPP-like

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Location: 244,597 - 255,916 nt. (total: 11,320 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

Oxidoreductases: dehydrogenase

AMK31_RS05360: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Hydrolases: deacetylase

AMK31_RS05315: polysaccharide deacetylase

smcogs: SMCOG1235: polysaccharide deacetylase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000674.5	0.44	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0002387.2	0.32	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0000874.5	0.28	other (other)	blasticidin S	Streptomyces griseochromogenes
BGC0001377.5	0.28	PKS	uncialamycin	Streptomyces uncialis
BGC0002788.2	0.28	PKS	14-hydroxyisochainin	Streptomyces peucetius subsp. caesius ATCC 27952
BGC0000448.5	0.26	NRPS	tomaymycin	Streptomyces achromogenes
BGC0001060.5	0.25	PKS	dynemicin A	Micromonospora chersina
BGC0001984.3	0.25	NRPS	sarpeptin A, sarpeptin B	Streptomyces sp.
BGC0000241.5	0.24	PKS, saccharide	lomaiviticin A, lomaiviticin C, lomaiviticin D, lomaiviticin E	Salinispora tropica CNB-440
BGC0001693.3	0.24	PKS	nenestatin	Micromonospora echinospora

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000674.5	0.44	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0002387.2	0.32	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0000874.5	0.28	other (other)	blasticidin S	Streptomyces griseochromogenes
BGC0001377.5	0.28	PKS	uncialamycin	Streptomyces uncialis
BGC0002788.2	0.28	PKS	14-hydroxyisochainin	Streptomyces peucetius subsp. caesius ATCC 27952
BGC0000448.5	0.26	NRPS	tomaymycin	Streptomyces achromogenes
BGC0001060.5	0.25	PKS	dynemicin A	Micromonospora chersina
BGC0001984.3	0.25	NRPS	sarpeptin A, sarpeptin B	Streptomyces sp.
BGC0000241.5	0.24	PKS, saccharide	lomaiviticin A, lomaiviticin C, lomaiviticin D, lomaiviticin E	Salinispora tropica CNB-440
BGC0001693.3	0.24	PKS	nenestatin	Micromonospora echinospora

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (2):

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.94 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.39 out of 28.14

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description

NZ_LIVZ01000002.1 - Region 4 - aminopolycarboxylic-acid

Download region GenBank file

Download region SVG

Location: 326,610 - 340,031 nt. (total: 13,422 nt) Show pHMM detection rules used

aminopolycarboxylic-acid: (AesA and AesB and AesC)

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: dehydrogenase

AMK31_RS05685: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Hydrolases: deaminase

AMK31_RS05655: ornithine cyclodeaminase

smcogs: SMCOG1158: ornithine cyclodeaminase

Lyases: decarboxylase

AMK31_RS05660: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Ligases: synthase

AMK31_RS05665: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001587.5	0.83	other (other)	ethylenediaminesuccinic acid hydroxyarginine (EDHA)	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0002568.2	0.81	other (other)	Ethylenediaminesuccinic acid hydroxyarginine	Streptomyces scabiei 87.22
BGC0002567.2	0.72	other (other)	EDHA	Streptomyces sp. MA5143a
BGC0000943.5	0.43	other (other)	staphyloferrin B	Staphylococcus aureus subsp. aureus NCTC 8325
BGC0000932.5	0.41	other (other)	tropodithietic acid, hydroxytropodithietic acid	Phaeobacter inhibens DSM 17395
BGC0001463.4	0.41	other (other)	2,3,4,5-tetrabromopyrrole	Pseudoalteromonas piscicida
BGC0001464.3	0.41	other (other)	tetrabromopyrrole	Pseudoalteromonas sp. PS5
BGC0002284.3	0.39	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000131.5	0.39	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0002213.3	0.36	PKS	HEx-pks16 polyketide	Punctularia strigosozonata HHB-11173 SS5

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001587.5	0.83	other (other)	ethylenediaminesuccinic acid hydroxyarginine (EDHA)	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0002568.2	0.81	other (other)	Ethylenediaminesuccinic acid hydroxyarginine	Streptomyces scabiei 87.22
BGC0002567.2	0.72	other (other)	EDHA	Streptomyces sp. MA5143a
BGC0000943.5	0.43	other (other)	staphyloferrin B	Staphylococcus aureus subsp. aureus NCTC 8325
BGC0000932.5	0.41	other (other)	tropodithietic acid, hydroxytropodithietic acid	Phaeobacter inhibens DSM 17395
BGC0001463.4	0.41	other (other)	2,3,4,5-tetrabromopyrrole	Pseudoalteromonas piscicida
BGC0001464.3	0.41	other (other)	tetrabromopyrrole	Pseudoalteromonas sp. PS5
BGC0002284.3	0.39	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000131.5	0.39	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0002213.3	0.36	PKS	HEx-pks16 polyketide	Punctularia strigosozonata HHB-11173 SS5

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: 18.46 out of 23.05

Confidence: medium

Additional weak hits (7):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.49 out of 26.06

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.72 out of 30.97

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 15.51 out of 20.97

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 24.25 out of 36.53

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 26.16 out of 36.53

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.72 out of 35.63

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.79 out of 20.01

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production

NZ_LIVZ01000002.1 - Region 5 - NRPS,NRPS-like,T1PKS

Download region GenBank file

Download region SVG

Location: 380,385 - 483,126 nt. (total: 102,742 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-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)
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

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: Reduction dehydrogenase oxidase oxygenase

AMK31_RS05880: monooxygenase FAD-binding

smcogs: SMCOG1246: monooxygenase FAD-binding

AMK31_RS05885: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

AMK31_RS05915: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

AMK31_RS05925: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

AMK31_RS05940: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS05970: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

AMK31_RS05980: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

AMK31_RS06040: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

AMK31_RS06055: Reduction

MITE: MITE0000117Reduction (identity: 60.60%)

Transferases: aminotransferase methyltransferase

AMK31_RS05910: O-methyltransferase

smcogs: SMCOG1042: O-methyltransferase

AMK31_RS05995: aminotransferase

smcogs: SMCOG1019: aminotransferase

Ligases: ligase synthase

AMK31_RS05900: 3-dehydroquinate synthase

smcogs: SMCOG1183: 3-dehydroquinate synthase

AMK31_RS06020: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS06025: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS06035: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS06045: 3-oxoacyl-(acyl carrier protein) synthase III

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

AMK31_RS40890: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS40895: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001273.3	0.86	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.86	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	0.85	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001244.3	0.85	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0002099.3	0.72	ribosomal	biarylitide YFH	Planomonospora sp. ID107089
BGC0002084.4	0.71	ribosomal	biarylitide YYH	Planomonospora sp. ID82291
BGC0000067.5	0.60	PKS	geldanamycin	Streptomyces hygroscopicus subsp. duamyceticus
BGC0002191.2	0.60	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0001284.4	0.57	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001164.3	0.56	PKS	1-heptadecene	Cyanothece sp. PCC 7822

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001833.4	0.75	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002135.2	0.75	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001275.3	0.74	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001133.4	0.73	NRPS	taxlllaid 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
BGC0001758.4	0.73	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 23.52 out of 26.33

Confidence: strong

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.45 out of 26.33

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: 28.65 out of 30.11

Confidence: strong

AfsQ1

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

Confidence: strong

CsoR

Description: Copper-responsive repressor
Species: Streptomyces lividans
Score: 27.11 out of 32.38

Confidence: medium

Additional weak hits (13):

MexT

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

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.96 out of 31.73

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.27 out of 18.57

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 18.79 out of 31.73

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.62 out of 27.78

Confidence: weak

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.36 out of 32.93

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.49 out of 39.62

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.84 out of 26.06

Confidence: weak

ArgR

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

Confidence: weak

MexT

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

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.25 out of 27.04

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.64 out of 26.85

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 24.60 out of 32.93

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 5, location 380384 - 483126:

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

Polymer prediction:: (Thr - Phe - Asn - X - D-Hpg) + (Gly) + (AHBA - redmal - ccmal) + (ccmal) + (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 6, location 380384 - 443634:

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

Polymer prediction:: (mal) + (ccmal) + (AHBA - redmal - ccmal) + (Gly)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 7, location 421947 - 483126:

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

Polymer prediction:: (Thr - Phe - Asn - X - D-Hpg) + (Gly) + (AHBA - redmal - ccmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS40890: mal

PKS_AT (571..859): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 83.3%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 211.1
inactive: 111.2
Methoxymalonyl-CoA: 58.6
Methylmalonyl-CoA: 53.7
Propionyl-CoA: 33.9
Acetyl-CoA: 23.1
CHC-CoA: 21.6
2-Methylbutyryl-CoA: 18.9
Ethylmalonyl-CoA: 13.0
Benzoyl-CoA: 12.5
trans-1,2-CPDA: 11.0
Isobutyryl-CoA: 8.8
fatty_acid: 6.5
3-Methylbutyryl-CoA: 0.0

AMK31_RS40895: mal

PKS_AT (574..862): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 218.6
inactive: 115.7
Methylmalonyl-CoA: 60.1
Methoxymalonyl-CoA: 59.6
Propionyl-CoA: 45.7
2-Methylbutyryl-CoA: 26.4
Acetyl-CoA: 25.5
Isobutyryl-CoA: 23.9
Benzoyl-CoA: 19.3
CHC-CoA: 18.4
Ethylmalonyl-CoA: 16.9
fatty_acid: 11.9
trans-1,2-CPDA: 9.9
3-Methylbutyryl-CoA: 0.0

AMK31_RS05940: AHBA - mal - mal

CAL_domain (34..446): AHBA

minowa: AHBA

Prediction, score:

AHBA: 451.3
shikimic_acid: 263.6
Acetyl-CoA: 19.7
fatty_acid: 0.0
NH2: 0.0

PKS_AT (1633..1923): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 222.6
inactive: 118.6
Methoxymalonyl-CoA: 61.0
Methylmalonyl-CoA: 58.3
Propionyl-CoA: 49.2
2-Methylbutyryl-CoA: 28.3
Isobutyryl-CoA: 26.7
Acetyl-CoA: 25.1
Benzoyl-CoA: 19.0
CHC-CoA: 18.5
Ethylmalonyl-CoA: 15.1
fatty_acid: 12.0
trans-1,2-CPDA: 10.6
3-Methylbutyryl-CoA: 0.0

PKS_AT (3648..3934): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 79.2%; 2-Rhyd-Malonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 225.9
inactive: 117.9
Methoxymalonyl-CoA: 59.7
Methylmalonyl-CoA: 57.5
Propionyl-CoA: 46.3
Acetyl-CoA: 25.6
Isobutyryl-CoA: 24.1
2-Methylbutyryl-CoA: 21.4
CHC-CoA: 18.0
Benzoyl-CoA: 17.8
Ethylmalonyl-CoA: 13.0
fatty_acid: 10.4
trans-1,2-CPDA: 9.5
3-Methylbutyryl-CoA: 0.0

AMK31_RS06020: Gly

Search NORINE for peptide: strict or relaxed

AMP-binding (466..868): Gly

nrpys: Gly

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:: gly (Gly)

Stachelhaus prediction details:

Stachelhaus sequence:: FAMTFDIHALELQALVGGETNLYGPTETTVWSTA
Nearest Stachelhaus code(s):: Gly DILQLGLVWK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

AMK31_RS06025: Thr - Phe - Asn - X - Hpg

Search NORINE for peptide: strict or relaxed

AMP-binding (464..858): 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:: LATHFDFSVWEGNQIFGGEVNMYGITETTVHVTE
Nearest Stachelhaus code(s):: Thr DFWNIGMVHK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1515..1908): 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:: LAQAFDAAFWEMTLVVAGEINAYGPTETTVCATM
Nearest Stachelhaus code(s):: Phe DAWTVAAVCK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2566..2957): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWASFDMTVTATKALLAGERNVYGPTETTVSCTE
Nearest Stachelhaus code(s):: Glu DLTKLAAVTK (74% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (3618..4014): X

nrpys: (unknown)

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:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: LAHAFDASACETMLITGGELNAYGPTESTVCATL
Nearest Stachelhaus code(s):: Leu DAWCIGAVCK (68% 8Å match)
Stachelhaus code match:: 80% (moderate)

AMP-binding (4676..5069): Hpg

nrpys: Hpg

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:: Polar, uncharged (hydroxy-phenyl) (Dhpg, Hpg)
Single AA prediction:: hpg (Hpg)

Stachelhaus prediction details:

Stachelhaus sequence:: LDPAFDISDYEVHFLTGGDRHLYGPTEITLCATS
Nearest Stachelhaus code(s):: Hpg DIYHLGLLCK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
AfsQ1	Two-component system AfsQ1-Q2, activator of antibiotic production
CelR	Cellobiose uptake repressor
CsoR	Copper-responsive repressor

NZ_LIVZ01000002.1 - Region 6 - NI-siderophore,PKS-like,T1PKS,butyrolactone

Download region GenBank file

Download region SVG

Location: 600,886 - 766,345 nt. (total: 165,460 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))
PKS-like: (t2pks2 or ksIII)
butyrolactone: AfsA
NI-siderophore: IucA_IucC

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 oxidoreductase oxygenase

AMK31_RS06710: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

AMK31_RS06720: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS06740: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

AMK31_RS06770: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

AMK31_RS06795: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS06845: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

AMK31_RS06860: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

AMK31_RS06865: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

AMK31_RS06935: Antibiotic biosynthesis monooxygenase

smcogs: SMCOG1258: Antibiotic biosynthesis monooxygenase

Transferases: acylase aminotransferase

AMK31_RS06705: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

AMK31_RS06880: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

AMK31_RS06975: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Hydrolases: esterase hydrolase phosphatase

AMK31_RS06715: alpha/beta hydrolase domain-containing protein

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

AMK31_RS06805: FkbH like protein

smcogs: SMCOG1256: FkbH like protein

AMK31_RS06890: thioesterase

smcogs: SMCOG1004: thioesterase

Isomerases: mutase

AMK31_RS06930: phosphoglycerate mutase

smcogs: SMCOG1101: phosphoglycerate mutase

Ligases: synthase

AMK31_RS06690: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS06725: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS06735: 3-oxoacyl-(acyl carrier protein) synthase III

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

AMK31_RS06745: 3-oxoacyl-(acyl carrier protein) synthase III

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

AMK31_RS06815: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS06820: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS06870: 3-oxoacyl-(acyl carrier protein) synthase III

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

AMK31_RS06875: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS39655: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS40920: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001257.3	0.91	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002154.2	0.91	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0000041.3	0.90	PKS	oronofacic acid	Pseudomonas syringae
BGC0001164.3	0.86	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001160.5	0.86	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001273.3	0.86	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.85	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001284.4	0.85	PKS	alternariol	Parastagonospora nodorum SN15
BGC0001244.3	0.84	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.83	PKS	6-methylsalicyclic acid	Glarea lozoyensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000041.3	0.76	PKS	oronofacic acid	Pseudomonas syringae
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001244.3	0.74	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.73	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001257.3	0.64	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0002154.2	0.64	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001160.5	0.64	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.64	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001258.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Glarea lozoyensis

Similar known clusters from MIBiG 4.0

Similar subclusters

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.09 out of 20.47

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.75 out of 20.97

Confidence: medium

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 30.13 out of 35.63

Confidence: medium

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 25.90 out of 27.18

Confidence: strong

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 26.06 out of 27.18

Confidence: strong

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 25.32 out of 29.65

Confidence: medium

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 21.71 out of 23.43

Confidence: medium

AfsR

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

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.37 out of 23.79

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.26 out of 19.26

Confidence: medium

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 22.14 out of 27.18

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

Additional weak hits (30):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.28 out of 30.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.91 out of 26.06

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 12.92 out of 18.57

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.08 out of 30.22

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.29 out of 27.78

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.62 out of 20.97

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

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.19 out of 30.22

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 13.00 out of 18.57

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 14.82 out of 27.78

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.19 out of 28.19

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

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.14 out of 19.26

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.72 out of 29.38

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.20 out of 30.25

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.56 out of 29.25

Confidence: weak

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 21.14 out of 32.93

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 17.86 out of 29.38

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.38 out of 25.88

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.09 out of 27.78

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.25 out of 30.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.76 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.84 out of 29.65

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.53 out of 26.06

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.42 out of 33.14

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

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.05 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.88 out of 29.65

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.23 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 8, location 600885 - 766345:

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

Polymer prediction:: (Me-mal - ccmal - ccmal) + (redmal) + (redmal - Me-ccmal) + (mal) + (Me-mal - ccmal) + (Me-mal - ccmal) + (ccmal - ccmal)
Non-colinear ordering:: AMK31_RS06815 + AMK31_RS06820 + AMK31_RS06875 + AMK31_RS06880 + AMK31_RS39655 + AMK31_RS40920 + AMK31_RS06690

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 9, location 600885 - 679013:

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

Polymer prediction:: (Me-mal - ccmal) + (Me-mal - ccmal) + (ccmal - ccmal)
Non-colinear ordering:: AMK31_RS39655 + AMK31_RS40920 + AMK31_RS06690

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 10, location 648948 - 690022:

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

Polymer prediction:: (Me-mal - ccmal - ccmal) + (Me-mal - ccmal)
Non-colinear ordering:: AMK31_RS06815 + AMK31_RS39655

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 11, location 665116 - 750198:

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

Polymer prediction:: (Me-mal - ccmal - ccmal) + (redmal) + (redmal - Me-ccmal) + (mal)
Non-colinear ordering:: AMK31_RS06815 + AMK31_RS06820 + AMK31_RS06875 + AMK31_RS06880

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS06690: mal - mal

PKS_AT (572..865): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 70.8%; Propionyl-CoA: 66.7%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 174.0
Methylmalonyl-CoA: 82.7
Methoxymalonyl-CoA: 74.1
inactive: 71.1
Ethylmalonyl-CoA: 52.6
Isobutyryl-CoA: 43.2
Propionyl-CoA: 31.3
Acetyl-CoA: 24.5
Benzoyl-CoA: 22.0
trans-1,2-CPDA: 17.9
2-Methylbutyryl-CoA: 16.0
fatty_acid: 10.3
CHC-CoA: 9.5
3-Methylbutyryl-CoA: 8.4

PKS_AT (2329..2623): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 192.3
inactive: 88.2
Methoxymalonyl-CoA: 79.1
Methylmalonyl-CoA: 68.1
Ethylmalonyl-CoA: 41.4
Propionyl-CoA: 41.0
Isobutyryl-CoA: 35.0
Acetyl-CoA: 27.2
CHC-CoA: 22.8
Benzoyl-CoA: 20.0
2-Methylbutyryl-CoA: 19.3
fatty_acid: 14.4
trans-1,2-CPDA: 14.3
3-Methylbutyryl-CoA: 8.0

AMK31_RS40920: mmal - mal

PKS_AT (590..888): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 75.0%; Malonyl-CoA: 70.8%; Methoxymalonyl-CoA: 70.8%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 172.8
Ethylmalonyl-CoA: 164.0
Methoxymalonyl-CoA: 144.2
2-Methylbutyryl-CoA: 103.6
Propionyl-CoA: 94.7
trans-1,2-CPDA: 91.8
CHC-CoA: 86.1
Malonyl-CoA: 79.0
Benzoyl-CoA: 53.9
Isobutyryl-CoA: 44.3
Acetyl-CoA: 36.6
fatty_acid: 33.6
inactive: 27.9
3-Methylbutyryl-CoA: 9.2

PKS_AT (1980..2277): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 79.2%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 206.4
inactive: 104.1
Methoxymalonyl-CoA: 70.2
Methylmalonyl-CoA: 66.9
Propionyl-CoA: 32.4
Isobutyryl-CoA: 28.3
trans-1,2-CPDA: 28.2
Ethylmalonyl-CoA: 27.9
Acetyl-CoA: 24.1
Benzoyl-CoA: 20.5
CHC-CoA: 13.9
2-Methylbutyryl-CoA: 11.5
fatty_acid: 11.1
3-Methylbutyryl-CoA: 0.0

AMK31_RS39655: mmal - mal

PKS_AT (576..878): 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: 221.9
Ethylmalonyl-CoA: 217.0
Methoxymalonyl-CoA: 184.6
2-Methylbutyryl-CoA: 159.6
trans-1,2-CPDA: 148.0
Propionyl-CoA: 123.4
CHC-CoA: 119.4
Malonyl-CoA: 118.1
Isobutyryl-CoA: 80.3
Benzoyl-CoA: 66.3
Acetyl-CoA: 47.8
3-Methylbutyryl-CoA: 44.2
inactive: 36.6
fatty_acid: 35.2

PKS_AT (4338..4631): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 79.2%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 185.5
inactive: 86.2
Methoxymalonyl-CoA: 73.9
Methylmalonyl-CoA: 70.1
Propionyl-CoA: 43.6
Ethylmalonyl-CoA: 30.7
Isobutyryl-CoA: 30.4
Acetyl-CoA: 22.8
2-Methylbutyryl-CoA: 19.8
fatty_acid: 17.4
Benzoyl-CoA: 17.2
CHC-CoA: 16.7
trans-1,2-CPDA: 11.6
3-Methylbutyryl-CoA: 5.7

AMK31_RS06705: mal

PKS_AT (507..799): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 79.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 200.2
inactive: 106.5
Methoxymalonyl-CoA: 51.5
Methylmalonyl-CoA: 44.2
Propionyl-CoA: 20.9
Acetyl-CoA: 16.3
Ethylmalonyl-CoA: 14.1
fatty_acid: 11.9
Isobutyryl-CoA: 8.5
2-Methylbutyryl-CoA: 3.3
trans-1,2-CPDA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMK31_RS06815: mmal - mal - mal

PKS_AT (121..422): mmal

ATSignature: Methylmalonyl-CoA, Methoxymalonyl-CoA, 2-Methylbutyryl-CoA

Top 3 matches:: Methylmalonyl-CoA: 58.3%; Methoxymalonyl-CoA: 58.3%; 2-Methylbutyryl-CoA: 58.3%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 129.8
Ethylmalonyl-CoA: 119.5
Methoxymalonyl-CoA: 112.9
2-Methylbutyryl-CoA: 111.1
Propionyl-CoA: 89.1
Isobutyryl-CoA: 75.2
trans-1,2-CPDA: 71.3
CHC-CoA: 66.5
3-Methylbutyryl-CoA: 40.5
Benzoyl-CoA: 38.8
Malonyl-CoA: 30.5
Acetyl-CoA: 19.5
inactive: 14.5
fatty_acid: 13.0

PKS_AT (1146..1420): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 173.5
inactive: 73.5
Methoxymalonyl-CoA: 65.4
Methylmalonyl-CoA: 45.1
Ethylmalonyl-CoA: 27.0
Isobutyryl-CoA: 24.9
Propionyl-CoA: 19.0
fatty_acid: 18.8
CHC-CoA: 12.4
2-Methylbutyryl-CoA: 10.7
Acetyl-CoA: 7.8
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (2874..3148): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 173.8
inactive: 87.2
Methoxymalonyl-CoA: 62.7
Methylmalonyl-CoA: 44.4
Isobutyryl-CoA: 26.9
Ethylmalonyl-CoA: 20.1
fatty_acid: 18.6
Propionyl-CoA: 16.4
CHC-CoA: 12.4
2-Methylbutyryl-CoA: 11.4
Acetyl-CoA: 7.2
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMK31_RS06820: mal

PKS_AT (561..837): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 175.4
inactive: 75.5
Methoxymalonyl-CoA: 67.7
Methylmalonyl-CoA: 48.1
Isobutyryl-CoA: 25.9
Ethylmalonyl-CoA: 24.6
Propionyl-CoA: 18.7
fatty_acid: 16.6
CHC-CoA: 11.7
Acetyl-CoA: 11.6
2-Methylbutyryl-CoA: 6.7
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMK31_RS06875: mal - mmal

PKS_AT (560..836): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 171.0
inactive: 80.3
Methoxymalonyl-CoA: 61.6
Methylmalonyl-CoA: 43.7
Isobutyryl-CoA: 24.9
Ethylmalonyl-CoA: 18.8
fatty_acid: 15.1
Propionyl-CoA: 14.4
CHC-CoA: 11.5
Acetyl-CoA: 10.8
2-Methylbutyryl-CoA: 10.1
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (2646..2940): mmal

ATSignature: Methylmalonyl-CoA

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

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 202.9
Ethylmalonyl-CoA: 189.6
Methoxymalonyl-CoA: 162.2
trans-1,2-CPDA: 116.0
2-Methylbutyryl-CoA: 115.4
Propionyl-CoA: 109.9
Malonyl-CoA: 98.6
CHC-CoA: 96.1
Isobutyryl-CoA: 66.2
fatty_acid: 50.9
Benzoyl-CoA: 49.8
Acetyl-CoA: 43.0
inactive: 25.3
3-Methylbutyryl-CoA: 17.9

AMK31_RS06880: mal

PKS_AT (573..870): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 79.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 186.9
inactive: 91.0
Methoxymalonyl-CoA: 56.4
Methylmalonyl-CoA: 45.3
Isobutyryl-CoA: 33.1
Ethylmalonyl-CoA: 32.3
Propionyl-CoA: 20.5
Benzoyl-CoA: 19.2
2-Methylbutyryl-CoA: 11.9
CHC-CoA: 9.8
Acetyl-CoA: 3.8
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
BldD	Development and antibiotic global regulator
CRP	Cyclic AMP receptor protein
CcpA	Catabolite control protein A
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
NrtR	NAD synthesis repressor
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000003.1 - Region 1 - azole-containing-RiPP

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Location: 8,318 - 38,067 nt. (total: 29,750 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

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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

AMK31_RS07405: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Lyases: dehydratase

AMK31_RS07345: Lantibiotic dehydratase domain protein

smcogs: SMCOG1155: Lantibiotic dehydratase domain protein

AMK31_RS07410: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase synthase

AMK31_RS07385: 3-oxoacyl-(acyl carrier protein) synthase III

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

AMK31_RS07395: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS07400: polyprenol-monophosphomannose synthase ppm1

smcogs: SMCOG1123: polyprenol-monophosphomannose synthase ppm1

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000606.5	0.67	ribosomal	lactazole	Streptomyces lactacystinaeus
BGC0001146.5	0.48	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0001174.4	0.47	ribosomal	corynazolicin	Corynebacterium urealyticum DSM 7111
BGC0001145.5	0.47	ribosomal	cyclothiazomycin b1	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0001640.3	0.45	ribosomal	kocurin	Kocuria rosea
BGC0000610.5	0.45	ribosomal	nosiheptide	Streptomyces actuosus
BGC0001707.5	0.45	ribosomal	nosiheptide	Streptomyces sp.
BGC0000603.5	0.44	ribosomal	cyclothiazomycin	Streptomyces hygroscopicus
BGC0000613.5	0.44	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39
BGC0001860.4	0.44	ribosomal	thiomuracin	Thermobispora bispora DSM 43833

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000606.5	0.67	ribosomal	lactazole	Streptomyces lactacystinaeus
BGC0001146.5	0.48	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0001174.4	0.47	ribosomal	corynazolicin	Corynebacterium urealyticum DSM 7111
BGC0001145.5	0.47	ribosomal	cyclothiazomycin b1	Streptomyces mobaraensis NBRC 13819 = DSM 40847
BGC0001640.3	0.45	ribosomal	kocurin	Kocuria rosea
BGC0000610.5	0.45	ribosomal	nosiheptide	Streptomyces actuosus
BGC0001707.5	0.45	ribosomal	nosiheptide	Streptomyces sp.
BGC0000603.5	0.44	ribosomal	cyclothiazomycin	Streptomyces hygroscopicus
BGC0000613.5	0.44	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39
BGC0001860.4	0.44	ribosomal	thiomuracin	Thermobispora bispora DSM 43833

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 24.17 out of 29.51

Confidence: medium

AfsR

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

Confidence: medium

Additional weak hits (9):

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 21.26 out of 32.93

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 15.70 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.96 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 16.24 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.84 out of 26.06

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.19 out of 26.85

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 18.02 out of 29.25

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.45 out of 24.78

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.39 out of 25.88

Confidence: weak

(Thi)azol(in)e containing peptide predictions

(Thi)azol(in)e containing peptide(s)

AMK31_RS07335

Leader:

MSDLARTALDLQDLDLDLSDLTVTAMRDTAALPEGGA

Core:

SWGSCSCQGSSSCAQPQPQLETGVVDAG

Core with dehydrations:

DhaWGDhaCysDhaCysQGDhaDhaDhaCysAQPQPQLEDhbGVVDAG

antiSMASH-DB 4.0 matches for AMK31_RS07335

100.0%

NZ_LIVZ01000003.1:

Thiopeptides: AMK31_RS07335_thiopeptide

1

SWGSCSCQGSSSCAQPQPQLETGVVDAG

28

SWGSCSCQGSSSCAQPQPQLETGVVDAG

1

SWGSCSCQGSSSCAQPQPQLETGVVDAG

28

96.4%

NZ_CP009438.1:

Thiopeptides: SGLAU_RS00690_thiopeptide

1

SWGSCSCQGSSSCAQPQPQLETGVVDAG

28

SWGSCSCQGSSSCAQPQPQL+TGVVDAG

1

SWGSCSCQGSSSCAQPQPQLDTGVVDAG

28

78.6%

NZ_BNBL01000005.1:

Thiopeptides: IE295_RS14780_thiopeptide

1

SWGSCSCQGSSSCAQPQPQLETGVVDAG

28

SWGSCSCQGSSSCA QP+LETG+ D G

1

SWGSCSCQGSSSCA--QPRLETGLPDVG

26

with 4 more sequence matches

75.0%

NZ_CP071595.1:

Thiopeptides: J3S04_RS28995_thiopeptide

1

SWGSCSCQGSSSCAQPQPQLETGVVDAG

28

SWGSCSCQ SSSCA PQLETG+ D G

1

SWGSCSCQASSSCA--HPQLETGMPDLG

26

64.3%

NZ_CP023701.1:

Thiopeptides: CP968_RS31560_thiopeptide

1

SWGSCSCQGSSSCAQPQPQLETGV

24

SWG+CSCQGSSSCAQP +TGV

1

SWGTCSCQGSSSCAQPD---QTGV

21

53.6%

NZ_CP023701.1:

Thiopeptides: CP968_RS31565_thiopeptide

1

SWGSCSCQGSSSCAQPQPQL

20

SWG+CSCQGSSSCA PQ +

1

SWGTCSCQGSSSCAHPQQNV

20

24.1%

NZ_CP021707.1:

Lanthipeptides: allorf_3956612_3956845_lanthipeptide

7

CQGSSSCAQPQPQLETGVVDAG

28

C + QP P++ T +DA

8

CSEAPGRTQPIPEMSTSSLDAA

29

AMK31_RS07340

Leader:

MSDTSSTPGLDLADLDLGDLTVTSMRDTVALPEGGA

Core:

SNGASSCSCSSSSCAQPQLPVPL

Core with dehydrations:

DhaNGADhaDhaCysDhaCysDhaDhaDhaDhaCysAQPQLPVPL

antiSMASH-DB 4.0 matches for AMK31_RS07340

100.0%

NZ_CP009438.1and 1 other:

NZ_LIVZ01000003.1 Thiopeptides: AMK31_RS07340_thiopeptide

Thiopeptides: SGLAU_RS00695_thiopeptide

1

SNGASSCSCSSSSCAQPQLPVPL

23

SNGASSCSCSSSSCAQPQLPVPL

1

SNGASSCSCSSSSCAQPQLPVPL

23

58.3%

NZ_CP023701.1:

Thiopeptides: CP968_RS31560_thiopeptide

1

SNGASSCSCSSSSCAQPQ---LPVP

22

S G SC SSSCAQP +PVP

1

SWGTCSCQ-GSSSCAQPDQTGVPVP

24

47.8%

NZ_CP064192.1:

Thiopeptides: IOD16_RS19015_thiopeptide

8

SCSSSSCAQPQLPVP

22

SC SS C QPQLP P

1

SCGSSCCCQPQLPQP

15

with 1 more sequence matches

44.0%

NZ_CP023701.1:

Thiopeptides: CP968_RS31565_thiopeptide

6

SCSC-SSSSCAQPQLPV

21

+CSC SSSCA PQ V

4

TCSCQGSSSCAHPQQNV

20

MIBiG 4.0 matches for AMK31_RS07340

8.8%

BGC0000535.4 (ADJ56352.1):

Lanthipeptide: nisin A

5

SSCSCS

10

++C CS

24

ATCHCS

29

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Types:

Type I: Featuring genes encoding indolic acid side ring (series e)
Type II: Featuring the gene coding for quinaldic acid moiety formation (series a, b, and c)
Type III: No genes for synthesizing L-Trp derivatives (series d)

RREFinder

TFBS Finder

Azole RiPPs

RRE predictions

: RRE type: Thiopeptide_F_RRE; Location: 30 - 114; Score: 59.9

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
DosR	Hypoxia stress response regulator

Core peptide predictions

AMK31_RS07335

Putative Type III

Cleavage pHMM score: 2.80

RODEO score: 21

Monoisotopic mass: 2768.1 Da

Molecular weight: 2770.0 Da

Predicted peptide features:
Central ring: pyridine trisubstituted

Alternative weights: (assuming N unmodified Ser/Thr residues); 2788.0 Da N = 1; 2806.0 Da N = 2; 2824.0 Da N = 3; 2842.0 Da N = 4; 2860.1 Da N = 5; 2878.1 Da N = 6; 2896.1 Da N = 7

AMK31_RS07340

Putative Type III

Cleavage pHMM score: 12.00

RODEO score: 26

Monoisotopic mass: 2208.9 Da

Molecular weight: 2210.4 Da

Predicted peptide features:
Central ring: pyridine trisubstituted

Alternative weights: (assuming N unmodified Ser/Thr residues); 2228.4 Da N = 1; 2246.5 Da N = 2; 2264.5 Da N = 3; 2282.5 Da N = 4; 2300.5 Da N = 5; 2318.5 Da N = 6; 2336.6 Da N = 7; 2354.6 Da N = 8

NZ_LIVZ01000003.1 - Region 2 - NRPS-like,T1PKS,lassopeptide

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Location: 42,937 - 89,944 nt. (total: 47,008 nt) Show pHMM detection rules used

NRPS-like: cds((PP-binding or NAD_binding_4) 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))
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

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

Lasso peptides

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

AMK31_RS07580: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

Transferases: acylase

AMK31_RS07505: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: hydrolase

AMK31_RS07515: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

AMK31_RS07570: alpha/beta hydrolase domain-containing protein

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

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001645.3	1.63	ribosomal	lagmysin	Streptomyces sp. NRRL S-118
BGC0001551.4	1.07	ribosomal	citrulassin E	Streptomyces glaucescens
BGC0002289.2	0.95	ribosomal	Leepeptin	Streptomyces leeuwenhoekii
BGC0002154.2	0.90	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0002191.2	0.89	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0002175.3	0.89	PKS	YWA1	Aspergillus oryzae RIB40
BGC0001257.3	0.89	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0001244.3	0.89	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.88	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001160.5	0.82	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001645.3	0.81	ribosomal	lagmysin	Streptomyces sp. NRRL S-118
BGC0001551.4	0.68	ribosomal	citrulassin E	Streptomyces glaucescens
BGC0002289.2	0.65	ribosomal	Leepeptin	Streptomyces leeuwenhoekii
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
BGC0002191.2	0.63	PKS	prolipyrone B, gibepyrone D	Fusarium graminearum PH-1
BGC0002175.3	0.63	PKS	YWA1	Aspergillus oryzae RIB40
BGC0001257.3	0.63	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245
BGC0001244.3	0.63	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001275.3	0.63	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001160.5	0.61	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lasso peptide predictions

Lassopeptides - No core peptides found.

Transcription Factor Binding Sites

Binding sites found:

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 22.67 out of 26.33

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.76 out of 27.04

Confidence: medium

AbrC3

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

Confidence: strong

Additional weak hits (15):

MexT

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

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 18.35 out of 25.88

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 21.87 out of 32.74

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.50 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.79 out of 29.65

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 19.63 out of 27.04

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.41 out of 25.75

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.68 out of 29.25

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 17.56 out of 29.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.46 out of 26.06

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.84 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.74 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 18.58 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.04 out of 33.14

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.54 out of 29.65

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

Lasso peptides

NRPS/PKS products

NRPS/PKS substrates

RREFinder

TFBS Finder

Core peptide predictions

No core peptides found.

Predicted core structure(s)

For candidate cluster 2, location 42936 - 89944:

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

Polymer prediction:: (AHBA - ccmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS07505: AHBA - mal

CAL_domain (28..450): AHBA

minowa: AHBA

Prediction, score:

AHBA: 242.3
shikimic_acid: 167.3
NH2: 11.4
fatty_acid: 0.0
Acetyl-CoA: 0.0

PKS_AT (1159..1442): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 75.0%; Methylmalonyl-CoA: 62.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 167.5
inactive: 78.2
Methoxymalonyl-CoA: 63.9
Methylmalonyl-CoA: 51.6
Isobutyryl-CoA: 40.1
Propionyl-CoA: 28.2
Ethylmalonyl-CoA: 22.3
fatty_acid: 20.3
Benzoyl-CoA: 19.7
CHC-CoA: 17.3
Acetyl-CoA: 13.6
trans-1,2-CPDA: 11.1
2-Methylbutyryl-CoA: 3.3
3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor

RRE predictions

: RRE type: Stand_Alone_Lasso_RRE; Location: 0 - 84; Score: 84.1; RRE type: PqqD_RRE; Location: 28 - 83; Score: 26.5

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
AbrC3	Antibiotic production activator
DasR	N-acetylglucosamine dependent repressor

NZ_LIVZ01000003.1 - Region 3 - RiPP-like

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Location: 162,099 - 173,478 nt. (total: 11,380 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
BGC0002115.3	0.78	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0002306.2	0.43	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000513.3	0.42	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.42	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.42	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0001555.4	0.42	ribosomal	colicin V	Escherichia coli chi7122
BGC0000501.3	0.42	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000554.4	0.41	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0002698.2	0.41	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002115.3	0.78	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0002306.2	0.43	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000513.3	0.42	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.42	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000519.4	0.42	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0001555.4	0.42	ribosomal	colicin V	Escherichia coli chi7122
BGC0000501.3	0.42	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000554.4	0.41	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0002698.2	0.41	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae

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: 18.00 out of 23.79

Confidence: medium

Additional weak hits (3):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.48 out of 30.25

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.88 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.45 out of 28.14

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
IolR	Regulator of the inositol catabolism

NZ_LIVZ01000003.1 - Region 4 - T1PKS

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Location: 189,578 - 304,239 nt. (total: 114,662 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

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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 oxygenase

AMK31_RS08230: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

AMK31_RS08250: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

AMK31_RS08255: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

Hydrolases: esterase

AMK31_RS08105: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: synthase

AMK31_RS08115: 1-deoxy-D-xylulose-5-phosphate synthase

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

AMK31_RS08130: 3-oxoacyl-(acyl carrier protein) synthase III

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

AMK31_RS08145: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS08150: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS08180: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

AMK31_RS08220: polyprenol-monophosphomannose synthase ppm1

smcogs: SMCOG1123: polyprenol-monophosphomannose synthase ppm1

AMK31_RS39720: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS41410: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000041.3	0.75	PKS	oronofacic acid	Pseudomonas syringae
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.73	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0000166.5	0.65	PKS	tylactone	Streptomyces fradiae
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
BGC0001051.5	0.64	NRPS, PKS	thuggacin A	Sorangium cellulosum
BGC0002154.2	0.64	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.64	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000041.3	0.75	PKS	oronofacic acid	Pseudomonas syringae
BGC0001273.3	0.74	PKS	asperlactone	Aspergillus ochraceus
BGC0001276.3	0.74	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0001275.3	0.73	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0000166.5	0.65	PKS	tylactone	Streptomyces fradiae
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
BGC0001051.5	0.64	NRPS, PKS	thuggacin A	Sorangium cellulosum
BGC0002154.2	0.64	PKS	1,3,5,8-tetrahydroxynapthalene, 1-(alpha-l-(2-O-methyl)-6-deoxymannopyranosyloxy)-3,6,8-trimethoxynaphthalene	Pyricularia oryzae 70-15
BGC0001257.3	0.64	PKS	1,3,6,8-tetrahydroxynaphthalene	Nodulisporium sp. ATCC74245

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

CRP

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

Confidence: strong

Additional weak hits (20):

RicR

Description: Copper-responsive regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.75 out of 32.93

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: 15.57 out of 29.38

Confidence: weak

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.19 out of 20.97

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.36 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 14.40 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 12.58 out of 28.14

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.67 out of 30.25

Confidence: weak

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.18 out of 27.55

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.38 out of 30.25

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 16.97 out of 30.25

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.52 out of 28.19

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.59 out of 24.78

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.58 out of 29.65

Confidence: weak

LuxO

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.33 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 22.21 out of 29.65

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.27 out of 20.01

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 19.42 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 5, location 189577 - 304239:

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

Polymer prediction:: (Me-mal - pk - ohmal - pk) + (ccmal - ccmal - ccmal) + (pk - ohmal - Me-ccmal) + (ohmal - ohmal - ccmal - ccemal) + (ccmal)
Non-colinear ordering:: AMK31_RS39720 + AMK31_RS08180 + AMK31_RS41410 + AMK31_RS08150 + AMK31_RS08145

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS08145: mal

PKS_AT (568..846): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 244.9
inactive: 131.9
Methoxymalonyl-CoA: 67.2
Methylmalonyl-CoA: 56.1
Propionyl-CoA: 38.7
Isobutyryl-CoA: 33.0
2-Methylbutyryl-CoA: 19.0
Acetyl-CoA: 17.6
Ethylmalonyl-CoA: 13.0
Benzoyl-CoA: 11.0
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMK31_RS08150: mal - mal - mal - emal

PKS_AT (552..838): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 245.2
inactive: 137.8
Methoxymalonyl-CoA: 67.4
Methylmalonyl-CoA: 54.5
Propionyl-CoA: 33.6
Isobutyryl-CoA: 33.6
Ethylmalonyl-CoA: 18.6
Acetyl-CoA: 16.8
Benzoyl-CoA: 14.3
fatty_acid: 13.8
2-Methylbutyryl-CoA: 13.3
trans-1,2-CPDA: 11.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (2079..2356): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 246.1
inactive: 146.8
Methoxymalonyl-CoA: 70.4
Methylmalonyl-CoA: 59.4
Isobutyryl-CoA: 45.8
Propionyl-CoA: 36.1
Ethylmalonyl-CoA: 23.6
Acetyl-CoA: 21.9
Benzoyl-CoA: 16.0
2-Methylbutyryl-CoA: 15.0
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (3618..3906): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 83.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 244.8
inactive: 136.9
Methoxymalonyl-CoA: 69.7
Methylmalonyl-CoA: 54.4
Propionyl-CoA: 37.1
Isobutyryl-CoA: 31.1
Ethylmalonyl-CoA: 21.2
Acetyl-CoA: 17.7
2-Methylbutyryl-CoA: 16.7
Benzoyl-CoA: 15.2
trans-1,2-CPDA: 10.8
fatty_acid: 9.7
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (5388..5681): emal

ATSignature: Ethylmalonyl-CoA, Methylmalonyl-CoA, Methoxymalonyl-CoA

Top 3 matches:: Ethylmalonyl-CoA: 83.3%; Methylmalonyl-CoA: 83.3%; Methoxymalonyl-CoA: 83.3%

minowa: Ethylmalonyl-CoA

Prediction, score:

Ethylmalonyl-CoA: 208.3
Methylmalonyl-CoA: 199.3
Methoxymalonyl-CoA: 162.6
2-Methylbutyryl-CoA: 149.3
trans-1,2-CPDA: 125.6
Propionyl-CoA: 108.3
CHC-CoA: 98.4
Malonyl-CoA: 81.1
Isobutyryl-CoA: 77.9
Benzoyl-CoA: 67.3
Acetyl-CoA: 40.2
fatty_acid: 39.9
3-Methylbutyryl-CoA: 32.4
inactive: 18.8

AMK31_RS41410: pk - mal - mmal

PKS_AT (570..867): pk

ATSignature: Methylmalonyl-CoA

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

minowa: Ethylmalonyl-CoA

Prediction, score:

Ethylmalonyl-CoA: 228.0
Methylmalonyl-CoA: 223.8
Methoxymalonyl-CoA: 185.8
2-Methylbutyryl-CoA: 163.0
trans-1,2-CPDA: 125.3
Propionyl-CoA: 119.4
Malonyl-CoA: 103.7
CHC-CoA: 97.7
Isobutyryl-CoA: 89.2
Benzoyl-CoA: 65.3
Acetyl-CoA: 55.8
3-Methylbutyryl-CoA: 52.2
inactive: 42.7
fatty_acid: 29.1

PKS_AT (2338..2636): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 79.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 222.5
inactive: 104.7
Methoxymalonyl-CoA: 67.6
Methylmalonyl-CoA: 52.7
Isobutyryl-CoA: 39.0
Acetyl-CoA: 29.8
Propionyl-CoA: 28.0
Benzoyl-CoA: 21.4
Ethylmalonyl-CoA: 14.3
trans-1,2-CPDA: 11.7
2-Methylbutyryl-CoA: 9.0
CHC-CoA: 6.4
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (3870..4167): 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: 227.0
Ethylmalonyl-CoA: 225.7
Methoxymalonyl-CoA: 181.9
2-Methylbutyryl-CoA: 179.0
trans-1,2-CPDA: 144.0
Propionyl-CoA: 123.9
CHC-CoA: 110.5
Malonyl-CoA: 108.7
Isobutyryl-CoA: 83.4
Benzoyl-CoA: 73.1
3-Methylbutyryl-CoA: 57.1
Acetyl-CoA: 51.8
fatty_acid: 42.2
inactive: 34.2

AMK31_RS08180: mal - mal - mal

PKS_AT (565..855): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 244.8
inactive: 131.9
Methoxymalonyl-CoA: 67.5
Methylmalonyl-CoA: 56.8
Propionyl-CoA: 35.7
Isobutyryl-CoA: 31.3
Acetyl-CoA: 17.6
2-Methylbutyryl-CoA: 13.7
Benzoyl-CoA: 11.7
Ethylmalonyl-CoA: 10.7
trans-1,2-CPDA: 8.2
fatty_acid: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (2322..2608): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 240.3
inactive: 143.2
Methoxymalonyl-CoA: 68.3
Methylmalonyl-CoA: 57.9
Propionyl-CoA: 40.6
Isobutyryl-CoA: 39.6
2-Methylbutyryl-CoA: 20.1
Acetyl-CoA: 17.8
Benzoyl-CoA: 11.3
Ethylmalonyl-CoA: 9.6
fatty_acid: 9.5
trans-1,2-CPDA: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PKS_AT (4079..4359): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 244.2
inactive: 124.3
Methoxymalonyl-CoA: 64.3
Methylmalonyl-CoA: 54.1
Propionyl-CoA: 36.8
Isobutyryl-CoA: 32.9
Acetyl-CoA: 17.6
Ethylmalonyl-CoA: 13.0
2-Methylbutyryl-CoA: 12.2
Benzoyl-CoA: 11.2
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

AMK31_RS39720: mmal - pk - mal - pk

PKS_AT (91..387): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 70.8%; Malonyl-CoA: 66.7%; Ethylmalonyl-CoA: 66.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 152.8
2-Methylbutyryl-CoA: 141.6
Ethylmalonyl-CoA: 133.7
Methoxymalonyl-CoA: 129.7
Propionyl-CoA: 128.6
CHC-CoA: 106.7
trans-1,2-CPDA: 83.8
Malonyl-CoA: 83.0
Benzoyl-CoA: 56.5
Isobutyryl-CoA: 56.0
fatty_acid: 42.0
3-Methylbutyryl-CoA: 30.8
inactive: 28.4
Acetyl-CoA: 26.6

PKS_AT (1094..1391): pk

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 91.7%; Malonyl-CoA: 87.5%; Methoxymalonyl-CoA: 83.3%

minowa: Ethylmalonyl-CoA

Prediction, score:

Ethylmalonyl-CoA: 232.3
Methylmalonyl-CoA: 219.4
Methoxymalonyl-CoA: 179.1
2-Methylbutyryl-CoA: 153.1
trans-1,2-CPDA: 132.6
Malonyl-CoA: 112.8
Propionyl-CoA: 103.2
CHC-CoA: 98.1
Isobutyryl-CoA: 89.3
Benzoyl-CoA: 68.3
Acetyl-CoA: 50.0
3-Methylbutyryl-CoA: 43.5
inactive: 26.1
fatty_acid: 25.0

PKS_AT (2865..3154): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 100.0%; inactive: 87.5%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 239.4
inactive: 126.2
Methoxymalonyl-CoA: 62.9
Methylmalonyl-CoA: 53.8
Propionyl-CoA: 40.7
Isobutyryl-CoA: 25.3
Ethylmalonyl-CoA: 19.0
Acetyl-CoA: 18.9
trans-1,2-CPDA: 15.9
Benzoyl-CoA: 12.5
fatty_acid: 10.6
CHC-CoA: 10.1
2-Methylbutyryl-CoA: 7.4
3-Methylbutyryl-CoA: 0.0

PKS_AT (4401..4701): pk

ATSignature: Methylmalonyl-CoA

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

minowa: Ethylmalonyl-CoA

Prediction, score:

Ethylmalonyl-CoA: 209.2
Methylmalonyl-CoA: 207.4
Methoxymalonyl-CoA: 174.9
2-Methylbutyryl-CoA: 146.5
trans-1,2-CPDA: 136.3
Propionyl-CoA: 113.4
CHC-CoA: 105.6
Malonyl-CoA: 83.8
Isobutyryl-CoA: 70.5
Benzoyl-CoA: 60.9
3-Methylbutyryl-CoA: 45.0
fatty_acid: 35.6
Acetyl-CoA: 32.5
inactive: 23.9

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
VqsM	Regulator of quorum-sensing signalling systems

NZ_LIVZ01000003.1 - Region 5 - RiPP-like,lanthipeptide-class-iii

Download region GenBank file

Download region SVG

Location: 457,802 - 481,451 nt. (total: 23,650 nt) Show pHMM detection rules used

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

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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

Transferases: glycosyltransferase

AMK31_RS09005: glycosyltransferase

smcogs: SMCOG1102: glycosyltransferase

Hydrolases: back translocase

AMK31_RS09010: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000518.3	0.62	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000554.4	0.32	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001555.4	0.32	ribosomal	colicin V	Escherichia coli chi7122
BGC0000590.5	0.31	ribosomal	microcin N	Escherichia coli
BGC0000551.5	0.31	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000588.5	0.29	ribosomal	microcin L	Escherichia coli
BGC0000513.3	0.29	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000501.3	0.28	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000519.4	0.28	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0002698.2	0.28	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000518.3	0.74	ribosomal	informatipeptin	Streptomyces viridochromogenes DSM 40736
BGC0000551.5	0.53	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0002700.2	0.52	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0000496.5	0.51	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000513.3	0.51	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000501.3	0.49	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0000519.4	0.49	ribosomal	labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3	Actinomadura namibiensis
BGC0002111.3	0.49	ribosomal	andalusicin A, andalusicin B	Bacillus thuringiensis serovar andalousiensis NRRL B-23139
BGC0000554.4	0.49	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000553.3	0.47	ribosomal	SRO15-2212	Streptomyces filamentosus NRRL 15998

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for AMK31_RS09045

AMK31_RS09050

Leader:

MALLDLQTMEADEHTGGGGAS

Core:

TVSLLSCISAASVLLCL

Core with dehydrations:

DhbVDhaLLDhaCysIDhaAADhaVLLCysL

antiSMASH-DB 4.0 matches for AMK31_RS09050

100.0%

NZ_AUKV01000001.1and 33 others:

NZ_BMSE01000001.1 Lanthipeptides: IE153_RS00140_lanthipeptideNZ_BMTM01000009.1 Lanthipeptides: IE213_RS27820_lanthipeptideNZ_BMUK01000002.1 Lanthipeptides: IE276_RS03565_lanthipeptideNZ_BMUO01000001.1 Lanthipeptides: IE232_RS00145_lanthipeptideNZ_BMWC01000009.1 Lanthipeptides: IE255_RS28335_lanthipeptideNZ_BNBR01000001.1 Lanthipeptides: IE308_RS02895_lanthipeptideNZ_CP015098.1 Lanthipeptides: A4E84_RS37870_lanthipeptideNZ_CP023694.1 Lanthipeptides: CP976_RS39235_lanthipeptideNZ_CP026121.1 Lanthipeptides: C1703_RS37710_lanthipeptideNZ_CP029788.1 Lanthipeptides: DMT42_RS35020_lanthipeptideNZ_CP041604.2 Lanthipeptides: FNV64_RS48055_lanthipeptideNZ_CP041610.2 Lanthipeptides: FNV62_RS46395_lanthipeptideNZ_CP041611.1 Lanthipeptides: FNV63_RS47280_lanthipeptideNZ_CP041613.2 Lanthipeptides: FNV68_RS48480_lanthipeptideNZ_CP041650.2 Lanthipeptides: FNV59_RS47040_lanthipeptideNZ_CP049780.1 Lanthipeptides: G7Z13_RS32285_lanthipeptideNZ_CP049838.1 Lanthipeptides: G9272_RS40085_lanthipeptideNZ_CP075896.1 Lanthipeptides: KJK29_RS01685_lanthipeptideNZ_CP094344.1 Lanthipeptides: MQE23_RS40865_lanthipeptideNZ_GG657757.1 Lanthipeptides: SSQG_RS35880_lanthipeptideNZ_JACHCX010000007.1 Lanthipeptides: HDC93_RS16065_lanthipeptideNZ_JACHGV010000013.1 Lanthipeptides: HNR57_RS32395_lanthipeptideNZ_JACHXE010000001.1 Lanthipeptides: FHS41_RS01865_lanthipeptideNZ_JAPJYN010000013.1 Lanthipeptides: OR263_RS25210_lanthipeptideNZ_KB911710.1 Lanthipeptides: H294_RS0120310_lanthipeptideNZ_KQ948484.1 Lanthipeptides: AQJ27_RS46770_lanthipeptideNZ_KQ948484.1 Lanthipeptides: AQJ27_RS46770_lanthipeptideNZ_KZ671983.1 Lanthipeptides: BV882_RS30460_lanthipeptideNZ_LIVZ01000003.1 Lanthipeptides: AMK31_RS09050_lanthipeptideNZ_LMEQ01000023.1 Lanthipeptides: ASD48_RS25330_lanthipeptideNZ_LMIZ01000012.1 Lanthipeptides: ASE41_RS11285_lanthipeptideNZ_LT963352.1 Lanthipeptides: SCNRRL3882_RS38195_lanthipeptideNZ_QFRX01000001.1 Lanthipeptides: DI272_RS05815_lanthipeptide

Lanthipeptides: H305_RS0100085_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSLLSCISAASVLLCL

1

TVSLLSCISAASVLLCL

17

94.1%

NC_003155.5and 5 others:

NZ_BBYG01000010.1 Lanthipeptides: AOQ37_RS09965_lanthipeptideNZ_KB891997.1 Lanthipeptides: B079_RS0125330_lanthipeptideNZ_KB912966.1 Lanthipeptides: B065_RS0120870_lanthipeptideNZ_MLCE01000039.1 Lanthipeptides: BKI49_RS34310_lanthipeptideNZ_MQUS01000001.1 Lanthipeptides: AV521_RS02305_lanthipeptide

Lanthipeptides: SAVERM_RS38515_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSLLSC+SAASVLLCL

1

TVSLLSCVSAASVLLCL

17

94.1%

NZ_BMSO01000020.1:

Lanthipeptides: IE184_RS33055_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSL+SCISAASVLLCL

1

TVSLISCISAASVLLCL

17

with 45 more sequence matches

Only the first 10 are displayed here.

94.1%

NZ_CP013743.1and 1 other:

NZ_JAJSBI010000005.1 Lanthipeptides: LJ657_RS12685_lanthipeptide

Lanthipeptides: AS200_RS06110_lanthipeptide

1

TVSLLSCISAASVLLCL

17

T SLLSCISAASVLLCL

1

TASLLSCISAASVLLCL

17

88.9%

NZ_CP021978.1:

Lanthipeptides: CEB94_RS37585_lanthipeptide

1

TVSLLSCISAASVLLCL

17

T+SLLSCISAASVLLCL

2

TLSLLSCISAASVLLCL

18

88.9%

NZ_KL585970.1:

Lanthipeptides: IH12_RS0128915_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSLLSCISAASV+LCL

2

TVSLLSCISAASVMLCL

18

88.2%

NZ_CM002285.1and 2 others:

NZ_CP047020.1 Lanthipeptides: GQF42_RS39440_lanthipeptideNZ_VISR01000012.1 Lanthipeptides: FB157_RS21700_lanthipeptide

Lanthipeptides: M878_RS54195_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSLLSC+SAAS+LLCL

1

TVSLLSCVSAASILLCL

17

88.2%

NZ_CP011497.1and 4 others:

NZ_CP017248.1 Lanthipeptides: BFF78_RS03720_lanthipeptideNZ_CP034687.1 Lanthipeptides: ELQ87_RS02805_lanthipeptideNZ_CP106795.1 Lanthipeptides: N8I86_RS33235_lanthipeptideNZ_LIWA01000002.1 Lanthipeptides: AMK32_RS11185_lanthipeptide

Lanthipeptides: ABB07_RS02975_lanthipeptide

1

TVSLLSCISAASVLLCL

17

T SLLSC+SAASVLLCL

1

TASLLSCVSAASVLLCL

17

88.2%

NZ_CP016279.1and 1 other:

NZ_KQ948226.1 Lanthipeptides: AQI95_RS36775_lanthipeptide

Lanthipeptides: AVL59_RS17635_lanthipeptide

1

TVSLLSCISAASVLLCL

17

T+SLLSC+SAASVLLCL

1

TLSLLSCVSAASVLLCL

17

88.2%

NZ_CP047019.1and 1 other:

NZ_KQ257821.1 Lanthipeptides: IQ63_RS17200_lanthipeptide

Lanthipeptides: A7X85_RS06550_lanthipeptide

2

VSLLSCISAASVLLCL

17

+SLLSCISAASVLLCL

1

LSLLSCISAASVLLCL

16

83.3%

NZ_BMSI01000009.1:

Lanthipeptides: IE189_RS23215_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSLLSC+SA SVLLCL

2

TVSLLSCVSATSVLLCL

18

83.3%

NZ_BMUM01000019.1and 1 other:

NZ_JANFDE010000009.1 Lanthipeptides: FHS35_RS28665_lanthipeptide

Lanthipeptides: IE284_RS41515_lanthipeptide

1

TVSLLSCISAASVLLCL

17

T+SLLSCISAASV LCL

2

TLSLLSCISAASVTLCL

18

83.3%

NZ_CP092051.1:

Lanthipeptides: MCU78_RS03785_lanthipeptide

1

TVSLLSCISAASVLLCL

17

TVSLLSC+SAASVL+CL

2

TVSLLSCVSAASVLVCL

18

MIBiG 4.0 matches for AMK31_RS09050

45.5%

BGC0000553.3 (SSGG_RS09925):

Lanthipeptide: SRO15-2212

2

VSLLSC-ISAASVLLC

16

VSLL C S+ SV+LC

5

VSLLVCEYSSLSVVLC

20

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: 19.52 out of 19.52

Confidence: strong

Additional weak hits (9):

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.73 out of 19.26

Confidence: weak

MexT

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

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 17.45 out of 30.25

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.36 out of 31.73

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 17.74 out of 26.33

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.61 out of 35.63

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.54 out of 30.98

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 18.21 out of 35.63

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

AMK31_RS09050 - Class III

Cleavage pHMM score: 27.00

RODEO score: 0

Monoisotopic mass: 1601.9 Da

Molecular weight: 1603.0 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 1621.0 Da N = 1; 1639.0 Da N = 2; 1657.0 Da N = 3

TFBS definitions

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

NZ_LIVZ01000004.1 - Region 1 - redox-cofactor

Download region GenBank file

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Location: 501,164 - 523,324 nt. (total: 22,161 nt) Show pHMM detection rules used

redox-cofactor: (cds(PF04055 and (TIGR04085 or SPASM)) and (TIGR02111 or TIGR03966) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]))

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

Transferases: acetyltransferase acyltransferase glycosyltransferase

AMK31_RS12700: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

AMK31_RS12715: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

AMK31_RS12720: Chloramphenicol acetyltransferase

smcogs: SMCOG1156: Chloramphenicol acetyltransferase

AMK31_RS12725: sugar transferase

smcogs: SMCOG1146: sugar transferase

AMK31_RS12765: acyltransferase 3

smcogs: SMCOG1088: acyltransferase 3

Hydrolases: back translocase

AMK31_RS12775: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

AMK31_RS12780: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

Lyases: dehydratase

AMK31_RS12705: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002363.3	0.50	ribosomal	berninamycin K, berninamycin J, berninamycin A, berninamycin B	Streptomyces sp.
BGC0000742.3	0.49	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000743.3	0.49	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000610.5	0.47	ribosomal	nosiheptide	Streptomyces actuosus
BGC0000615.4	0.45	ribosomal	TP-1161	Nocardiopsis sp. TFS65-07
BGC0000741.3	0.45	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000744.3	0.45	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000745.3	0.45	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000740.3	0.44	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000746.3	0.44	saccharide	capsular polysaccharide	Streptococcus agalactiae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002363.3	0.50	ribosomal	berninamycin K, berninamycin J, berninamycin A, berninamycin B	Streptomyces sp.
BGC0000742.3	0.49	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000743.3	0.49	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000610.5	0.47	ribosomal	nosiheptide	Streptomyces actuosus
BGC0000615.4	0.45	ribosomal	TP-1161	Nocardiopsis sp. TFS65-07
BGC0000741.3	0.45	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000744.3	0.45	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000745.3	0.45	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000740.3	0.44	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000746.3	0.44	saccharide	capsular polysaccharide	Streptococcus agalactiae

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: 16.67 out of 19.26

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.17 out of 23.79

Confidence: medium

Additional weak hits (7):

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 21.71 out of 33.73

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.58 out of 29.51

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.98 out of 30.22

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 18.70 out of 26.12

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.07 out of 29.25

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.82 out of 30.97

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.14 out of 30.22

Confidence: weak

RREFinder

TFBS Finder

RRE predictions

: RRE type: PqqD_RRE; Location: 7 - 89; Score: 59.7

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
IolR	Regulator of the inositol catabolism

NZ_LIVZ01000005.1 - Region 1 - terpene

Download region GenBank file

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Location: 42,878 - 63,975 nt. (total: 21,098 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: oxygenase

AMK31_RS14020: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

Hydrolases: deformylase

AMK31_RS14010: peptide deformylase

smcogs: SMCOG1275: peptide deformylase

Lyases: cyclase

AMK31_RS14015: Terpene synthase/cyclase metal-binding domain protein

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

Translocases: transporter

AMK31_RS14050: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000660.5	0.86	terpene	albaflavenone	Streptomyces coelicolor A3(2)
BGC0001746.3	0.75	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0002043.3	0.54	ribosomal	cittilin A, cittilin B	Myxococcus xanthus DK 1622
BGC0000675.5	0.49	terpene	(+)-T-muurolol	Streptomyces clavuligerus ATCC 27064
BGC0000674.5	0.48	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0000677.5	0.45	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001910.4	0.42	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0001911.3	0.41	terpene	raimonol	Streptomyces anulatus
BGC0000678.5	0.38	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000286.3	0.38	PKS	viguiepinol	Streptomyces sp. KO-3988

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000660.5	0.86	terpene	albaflavenone	Streptomyces coelicolor A3(2)
BGC0001746.3	0.75	terpene	pristinol	Streptomyces pristinaespiralis ATCC 25486
BGC0002043.3	0.54	ribosomal	cittilin A, cittilin B	Myxococcus xanthus DK 1622
BGC0000675.5	0.49	terpene	(+)-T-muurolol	Streptomyces clavuligerus ATCC 27064
BGC0000674.5	0.48	terpene	(-)-δ-cadinene	Streptomyces clavuligerus ATCC 27064
BGC0000677.5	0.45	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0001910.4	0.42	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0001911.3	0.41	terpene	raimonol	Streptomyces anulatus
BGC0000678.5	0.38	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000286.3	0.38	PKS	viguiepinol	Streptomyces sp. KO-3988

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

No product predictions

Genes with terpene domains:

AMK31_RS14015: T1TS

Domain 1 (2 - 343): Type 1 terpene synthase

Subtype: unknown

Transcription Factor Binding Sites

Binding sites found:

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 24.51 out of 27.18

Confidence: strong

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 25.12 out of 27.18

Confidence: strong

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 24.29 out of 27.04

Confidence: strong

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 20.09 out of 23.43

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 22.44 out of 27.04

Confidence: medium

Additional weak hits (4):

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.85 out of 18.57

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.70 out of 26.33

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.46 out of 20.01

Confidence: weak

Terpene

TFBS Finder

Glossary

No acronyms to display

TFBS definitions

Regulator	Description
BldD	Development and antibiotic global regulator
DasR	N-acetylglucosamine dependent repressor
NrdR	Represses ribonucleotide reductase encoding genes

NZ_LIVZ01000005.1 - Region 2 - terpene-precursor

Download region GenBank file

Download region SVG

Location: 73,249 - 94,415 nt. (total: 21,167 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

AMK31_RS14205: methyltransferase

smcogs: SMCOG1089: methyltransferase

Ligases: synthetase

AMK31_RS14150: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0000948.5	0.45	other (other)	α-galactosylceramide	Bacteroides fragilis NCTC 9343
BGC0000657.5	0.44	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0002400.2	0.43	terpene	boleracene	Brassica oleracea var. oleracea
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000677.5	0.41	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000678.5	0.41	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0001605.3	0.38	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002398.2	0.38	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002397.2	0.46	terpene	astallatene	Arabidopsis thaliana
BGC0000948.5	0.45	other (other)	α-galactosylceramide	Bacteroides fragilis NCTC 9343
BGC0000657.5	0.44	terpene	2-methylisoborneol	Pseudanabaena sp. dqh15
BGC0002400.2	0.43	terpene	boleracene	Brassica oleracea var. oleracea
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0000677.5	0.41	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000678.5	0.41	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0001605.3	0.38	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0002398.2	0.38	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana

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:

AMK31_RS14150: PT_FPPS_like

Domain 1 (99 - 386): 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:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 15.86 out of 18.57

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

Additional weak hits (8):

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 17.33 out of 30.97

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

ArcA

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

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.89 out of 23.43

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.33 out of 20.01

Confidence: weak

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 14.42 out of 18.57

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.37 out of 27.78

Confidence: weak

ClgR

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

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
ToxT	Regulator of MSHA biosynthesis

NZ_LIVZ01000007.1 - Region 1 - ectoine

Download region GenBank file

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Location: 566,667 - 577,071 nt. (total: 10,405 nt) Show pHMM detection rules used

ectoine: ectoine_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

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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

Transferases: aminotransferase

AMK31_RS21875: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

AMK31_RS21885: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

AMK31_RS21900: aminotransferase class V

smcogs: SMCOG1139: aminotransferase class V

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000853.3	0.85	other (other)	ectoine	Streptomyces anulatus
BGC0002052.3	0.85	other (ectoine)	ectoine	Streptomyces sp.
BGC0000852.5	0.70	other (other)	ectoine	Sporosarcina pasteurii
BGC0000858.3	0.67	other (other)	ectoine	Methylobacter marinus
BGC0000859.3	0.66	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0000856.3	0.66	other (other)	ectoine	Methylophaga thalassica
BGC0000855.3	0.66	other (other)	ectoine	Methylomicrobium kenyense
BGC0000857.3	0.59	other (other)	ectoine	Methylophaga alcalica
BGC0000860.3	0.59	other (other)	ectoine	Methylarcula marina
BGC0000854.3	0.59	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000853.3	0.85	other (other)	ectoine	Streptomyces anulatus
BGC0002052.3	0.85	other (ectoine)	ectoine	Streptomyces sp.
BGC0000852.5	0.70	other (other)	ectoine	Sporosarcina pasteurii
BGC0000858.3	0.67	other (other)	ectoine	Methylobacter marinus
BGC0000859.3	0.66	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0000856.3	0.66	other (other)	ectoine	Methylophaga thalassica
BGC0000855.3	0.66	other (other)	ectoine	Methylomicrobium kenyense
BGC0000857.3	0.59	other (other)	ectoine	Methylophaga alcalica
BGC0000860.3	0.59	other (other)	ectoine	Methylarcula marina
BGC0000854.3	0.59	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z

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: 18.43 out of 23.79

Confidence: medium

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 16.52 out of 19.26

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.26 out of 28.19

Confidence: medium

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 17.62 out of 19.52

Confidence: medium

Additional weak hits (7):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 15.31 out of 27.78

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.37 out of 30.22

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 18.93 out of 29.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 14.33 out of 26.06

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 17.04 out of 26.12

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.00 out of 26.85

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.76 out of 28.19

Confidence: weak

TFBS Finder

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
ZuR variant 1	Zinc-responsive repressor

NZ_LIVZ01000008.1 - Region 1 - NRPS-like,T1PKS

Download region GenBank file

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Location: 11,421 - 73,735 nt. (total: 62,315 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-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

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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 oxidase oxidoreductase oxygenase

AMK31_RS22725: cytochrome P450

smcogs: SMCOG1034: cytochrome P450

AMK31_RS22765: flavin reductase domain protein FMN-binding

smcogs: SMCOG1160: flavin reductase domain protein FMN-binding

AMK31_RS22815: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS22820: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

AMK31_RS22860: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

AMK31_RS22865: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

AMK31_RS22880: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

AMK31_RS22900: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

AMK31_RS22910: alcohol dehydrogenase

smcogs: SMCOG1040: alcohol dehydrogenase

AMK31_RS22915: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

AMK31_RS22920: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

Transferases: acyltransferase

AMK31_RS22875: acyltransferase 3

smcogs: SMCOG1088: acyltransferase 3

Ligases: ligase synthase

AMK31_RS22755: Beta-ketoacyl synthase

smcogs: SMCOG1093: Beta-ketoacyl synthase

AMK31_RS22840: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

AMK31_RS22855: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

Translocases: transporter

AMK31_RS22850: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.81	NRPS	dimethylcoprogen	Alternaria alternata
BGC0002164.2	0.65	NRPS	peramine	Epichloe festucae
BGC0001135.5	0.65	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001261.3	0.64	NRPS	AM-toxin	Alternaria alternata
BGC0001132.4	0.63	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.62	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.4	0.61	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001240.4	0.60	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0002135.2	0.59	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0000056.3	0.70	PKS	esperamicin	Actinomadura verrucosospora
BGC0001135.5	0.67	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002164.2	0.67	NRPS	peramine	Epichloe festucae
BGC0001261.3	0.67	NRPS	AM-toxin	Alternaria alternata
BGC0001132.4	0.66	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0002286.3	0.65	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.65	NRPS	AbT1	Aureobasidium pullulans
BGC0001128.4	0.65	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001240.4	0.65	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii

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: 18.19 out of 23.79

Confidence: medium

AfsR

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

Confidence: medium

Additional weak hits (11):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 15.93 out of 31.73

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.40 out of 28.14

Confidence: weak

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 15.88 out of 19.26

Confidence: weak

HipB

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

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.23 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 16.18 out of 31.73

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.37 out of 28.19

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.31 out of 28.19

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.62 out of 24.78

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.65 out of 33.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.47 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 1, location 11420 - 73735:

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

Polymer prediction:: (Hpg)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 11420 - 57291:

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

Polymer prediction:: (Hpg)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 31953 - 73735:

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

Polymer prediction:: (Hpg)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

AMK31_RS22755: mal

PKS_AT (624..850): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 58.3%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 97.4
Methoxymalonyl-CoA: 51.5
Methylmalonyl-CoA: 46.0
inactive: 41.5
Propionyl-CoA: 32.8
Ethylmalonyl-CoA: 24.7
Isobutyryl-CoA: 24.2
fatty_acid: 17.4
trans-1,2-CPDA: 15.7
Acetyl-CoA: 11.4
3-Methylbutyryl-CoA: 11.0
Benzoyl-CoA: 3.8
2-Methylbutyryl-CoA: -0.2
CHC-CoA: -2.0

AMK31_RS22840: Hpg

Search NORINE for peptide: strict or relaxed

AMP-binding (9..405): Hpg

nrpys: Hpg

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:: Polar, uncharged (hydroxy-phenyl) (Dhpg, Hpg)
Single AA prediction:: val (Val)

Stachelhaus prediction details:

Stachelhaus sequence:: LDSAFNVSTYEVHLLTGGDRAMYGATEATLFSTH
Nearest Stachelhaus code(s):: Hpg NVYHLGMLFK (91% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
IolR	Regulator of the inositol catabolism

NZ_LIVZ01000008.1 - Region 2 - hydrogen-cyanide

Download region GenBank file

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Location: 334,175 - 347,216 nt. (total: 13,042 nt) Show pHMM detection rules used

hydrogen-cyanide: (Fer2_4 and cds(Pyr_redox_2 and Fer2_BFD) and DAO)

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: oxidoreductase reductase

AMK31_RS24085: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

AMK31_RS24095: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

Hydrolases: back translocase

AMK31_RS24105: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002345.2	0.54	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0002285.2	0.38	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0001428.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001423.4	0.33	NRPS, PKS	myxochromide C	Myxococcus hansupus
BGC0001424.4	0.33	NRPS, PKS	myxochromide C	Myxococcus virescens
BGC0001426.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001427.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001421.4	0.33	NRPS, PKS	myxochromide B	Myxococcus sp.
BGC0001425.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus DK 1622
BGC0002363.3	0.31	ribosomal	berninamycin K, berninamycin J, berninamycin A, berninamycin B	Streptomyces sp.

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002345.2	0.54	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0002285.2	0.38	ribosomal	aborycin	Streptomyces sp. ZS0098
BGC0001428.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001423.4	0.33	NRPS, PKS	myxochromide C	Myxococcus hansupus
BGC0001424.4	0.33	NRPS, PKS	myxochromide C	Myxococcus virescens
BGC0001426.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001427.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus
BGC0001421.4	0.33	NRPS, PKS	myxochromide B	Myxococcus sp.
BGC0001425.4	0.33	NRPS, PKS	myxochromide A	Myxococcus xanthus DK 1622
BGC0002363.3	0.31	ribosomal	berninamycin K, berninamycin J, berninamycin A, berninamycin B	Streptomyces sp.

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (11):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 22.20 out of 36.54

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 20.36 out of 36.54

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 20.76 out of 36.54

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 16.54 out of 26.12

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 19.51 out of 36.54

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 18.75 out of 36.54

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.84 out of 26.33

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 19.21 out of 26.33

Confidence: weak

MexT

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

Confidence: weak

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 24.27 out of 30.12

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.09 out of 30.98

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description