GCF_002552225.1 - 15 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_NVOB01000013.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 4.1	NI-siderophore	809	32,522	High	petrobactin	other:other

NZ_NVOB01000018.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 9.1	t3nrps-iterative	1	29,727

NZ_NVOB01000020.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 12.1	NRPS	141,360	188,370
Region 12.2	RiPP-like	205,896	216,162

NZ_NVOB01000021.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 13.1	terpene	207,587	229,440	Low	molybdenum cofactor	other:other
Region 13.2	lassopeptide	337,084	360,991	Medium	paeninodin	ribosomal:unmodified

NZ_NVOB01000033.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 26.1	azole-containing-RiPP	69,478	92,984

NZ_NVOB01000003.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 33.1	NRPS-like	96,274	135,014

NZ_NVOB01000040.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 34.1	RiPP-like	1,823	12,146
Region 34.2	betalactone	71,769	97,007	Low	fengycin	NRPS:Type I

NZ_NVOB01000041.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 35.1	RiPP-like	21,479	29,170

NZ_NVOB01000050.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 45.1	lanthipeptide-class-ii	49,204	72,032	High	thuricin	ribosomal:RiPP

NZ_NVOB01000060.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 55.1	NRP-metallophore,NRPS	1	20,270	Medium	bacillibactin	NRPS:Type I

NZ_NVOB01000006.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 58.1	NRPS	1	29,324	Medium	bacillibactin	NRPS:Type I

NZ_NVOB01000008.1 (Bacillus toyonensis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 68.1	terpene-precursor	460,634	481,524

No secondary metabolite regions were found in these records:: NZ_NVOB01000010.1 (Bacillus toyonensis); NZ_NVOB01000011.1 (Bacillus toyonensis); NZ_NVOB01000012.1 (Bacillus toyonensis); NZ_NVOB01000014.1 (Bacillus toyonensis); NZ_NVOB01000015.1 (Bacillus toyonensis); NZ_NVOB01000016.1 (Bacillus toyonensis); NZ_NVOB01000017.1 (Bacillus toyonensis); NZ_NVOB01000019.1 (Bacillus toyonensis); NZ_NVOB01000001.1 (Bacillus toyonensis); NZ_NVOB01000022.1 (Bacillus toyonensis); NZ_NVOB01000023.1 (Bacillus toyonensis); NZ_NVOB01000024.1 (Bacillus toyonensis); NZ_NVOB01000025.1 (Bacillus toyonensis); NZ_NVOB01000026.1 (Bacillus toyonensis); NZ_NVOB01000027.1 (Bacillus toyonensis); NZ_NVOB01000028.1 (Bacillus toyonensis); NZ_NVOB01000029.1 (Bacillus toyonensis); NZ_NVOB01000002.1 (Bacillus toyonensis); NZ_NVOB01000030.1 (Bacillus toyonensis); NZ_NVOB01000031.1 (Bacillus toyonensis); NZ_NVOB01000032.1 (Bacillus toyonensis); NZ_NVOB01000034.1 (Bacillus toyonensis); NZ_NVOB01000035.1 (Bacillus toyonensis); NZ_NVOB01000036.1 (Bacillus toyonensis); NZ_NVOB01000037.1 (Bacillus toyonensis); NZ_NVOB01000038.1 (Bacillus toyonensis); NZ_NVOB01000039.1 (Bacillus toyonensis); NZ_NVOB01000042.1 (Bacillus toyonensis); NZ_NVOB01000043.1 (Bacillus toyonensis); NZ_NVOB01000044.1 (Bacillus toyonensis); NZ_NVOB01000045.1 (Bacillus toyonensis); NZ_NVOB01000046.1 (Bacillus toyonensis); NZ_NVOB01000047.1 (Bacillus toyonensis); NZ_NVOB01000048.1 (Bacillus toyonensis); NZ_NVOB01000049.1 (Bacillus toyonensis); NZ_NVOB01000004.1 (Bacillus toyonensis); NZ_NVOB01000051.1 (Bacillus toyonensis); NZ_NVOB01000052.1 (Bacillus toyonensis); NZ_NVOB01000053.1 (Bacillus toyonensis); NZ_NVOB01000054.1 (Bacillus toyonensis); NZ_NVOB01000055.1 (Bacillus toyonensis); NZ_NVOB01000056.1 (Bacillus toyonensis); NZ_NVOB01000058.1 (Bacillus toyonensis); NZ_NVOB01000059.1 (Bacillus toyonensis); NZ_NVOB01000005.1 (Bacillus toyonensis); NZ_NVOB01000063.1 (Bacillus toyonensis); NZ_NVOB01000066.1 (Bacillus toyonensis); NZ_NVOB01000070.1 (Bacillus toyonensis); NZ_NVOB01000071.1 (Bacillus toyonensis); NZ_NVOB01000072.1 (Bacillus toyonensis); NZ_NVOB01000073.1 (Bacillus toyonensis); NZ_NVOB01000074.1 (Bacillus toyonensis); NZ_NVOB01000079.1 (Bacillus toyonensis); NZ_NVOB01000007.1 (Bacillus toyonensis); NZ_NVOB01000080.1 (Bacillus toyonensis); NZ_NVOB01000088.1 (Bacillus toyonensis); NZ_NVOB01000009.1 (Bacillus toyonensis)

Compact view

NZ_NVOB01000013.1 - Region 1 - NI-siderophore

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Location: 809 - 32,522 nt. (total: 31,714 nt) Show pHMM detection rules used

Region on contig edge.

NI-siderophore: IucA_IucC

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

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Gene details

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Gene overview

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

Tailoring functions

Transferases: aminotransferase

CON62_RS13780: aminotransferase

smcogs: SMCOG1019: aminotransferase

Hydrolases: deacetylase

CON62_RS13715: polysaccharide deacetylase

smcogs: SMCOG1235: polysaccharide deacetylase

Ligases: ligase synthase

CON62_RS13675: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

CON62_RS13745: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000942.4	0.88	other (other)	petrobactin	Bacillus anthracis str. Ames
BGC0002469.2	0.54	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0000295.5	0.53	NRPS	acinetoferrin	Acinetobacter haemolyticus
BGC0002692.2	0.50	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0001531.5	0.50	other (other)	bisucaberin B	Tenacibaculum mesophilum
BGC0002620.2	0.50	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina
BGC0002464.3	0.49	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002458.3	0.48	NRPS	alazopeptin	Streptacidiphilus griseoplanus
BGC0001498.5	0.48	other (other)	aerobactin	Xenorhabdus szentirmaii DSM 16338
BGC0002683.2	0.47	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000942.4	0.88	other (other)	petrobactin	Bacillus anthracis str. Ames
BGC0002469.2	0.54	other (other)	woodybactin A, woodybactin B, woodybactin C, woodybactin D	Shewanella woodyi ATCC 51908
BGC0000295.5	0.53	NRPS	acinetoferrin	Acinetobacter haemolyticus
BGC0002692.2	0.50	other (other)	speibonoxamine, desoxy-desferrioxamine D1, desferrioxamine D1, desferrioxamine B, didesoxy-desferrioxamine D1, desoxy-desferrioxamine B, didesoxy-desferrioxamine B	Kribbella speibonae
BGC0001531.5	0.50	other (other)	bisucaberin B	Tenacibaculum mesophilum
BGC0002620.2	0.50	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina
BGC0002464.3	0.49	other (other)	alcaligin	Bordetella pertussis Tohama I
BGC0002458.3	0.48	NRPS	alazopeptin	Streptacidiphilus griseoplanus
BGC0001498.5	0.48	other (other)	aerobactin	Xenorhabdus szentirmaii DSM 16338
BGC0002683.2	0.47	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.38 out of 29.38

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.60 out of 32.93

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.71 out of 25.88

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 23.93 out of 28.19

Confidence: medium

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 15.13 out of 18.16

Confidence: strong

Additional weak hits (4):

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.58 out of 19.52

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 22.23 out of 33.73

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.50 out of 32.74

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 25.60 out of 36.54

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
FuR variant 1	Ferric Uptake Regulator
LexA variant 3	Repressor of DNA damage response
PsrA	Oleic acid responsive regulator
ZuR variant 1	Zinc-responsive repressor

NZ_NVOB01000018.1 - Region 1 - t3nrps-iterative

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Location: 1 - 29,727 nt. (total: 29,727 nt) Show pHMM detection rules used

Region on contig edge.

t3nrps-iterative: (AMP-binding and PP-binding and (DUF98 or Orn_Arg_deC_N or Orn_DAP_Arg_deC) and not ATP-grasp)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

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MIBiG comparison

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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

CON62_RS15795: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

CON62_RS15855: nucleotide sugar dehydrogenase

smcogs: SMCOG1152: nucleotide sugar dehydrogenase

Transferases: aminotransferase

CON62_RS15830: DegT/DnrJ/EryC1/StrS aminotransferase

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

Hydrolases: hydrolase

CON62_RS15800: hydrolase

smcogs: SMCOG1179: hydrolase

Lyases: decarboxylase

CON62_RS15785: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase

CON62_RS15780: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001843.2	0.47	NRPS	tridecaptin M	Paenibacillus sp. M-152
BGC0002473.3	0.46	NRPS	propanochelin, butanochelin, pentanochelin	Acinetobacter bouvetii DSM 14964 = CIP 107468
BGC0000449.5	0.46	NRPS	tridecaptin	Paenibacillus terrae
BGC0001153.5	0.45	NRPS	polymyxin B	Paenibacillus polymyxa
BGC0000408.5	0.45	NRPS	polymyxin	Paenibacillus polymyxa
BGC0001192.5	0.45	NRPS	colistin A, colistin B	Paenibacillus alvei
BGC0002653.2	0.45	NRPS	macolacin	Paenibacillus xylanexedens
BGC0001185.5	0.44	NRPS	bacillibactin	Bacillus velezensis FZB42
BGC0002474.2	0.44	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0000623.3	0.43	ribosomal	plantaricin W α, plantaricin W β	Lactobacillus plantarum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001843.2	0.47	NRPS	tridecaptin M	Paenibacillus sp. M-152
BGC0002473.3	0.46	NRPS	propanochelin, butanochelin, pentanochelin	Acinetobacter bouvetii DSM 14964 = CIP 107468
BGC0000449.5	0.46	NRPS	tridecaptin	Paenibacillus terrae
BGC0001153.5	0.45	NRPS	polymyxin B	Paenibacillus polymyxa
BGC0000408.5	0.45	NRPS	polymyxin	Paenibacillus polymyxa
BGC0001192.5	0.45	NRPS	colistin A, colistin B	Paenibacillus alvei
BGC0002653.2	0.45	NRPS	macolacin	Paenibacillus xylanexedens
BGC0001185.5	0.44	NRPS	bacillibactin	Bacillus velezensis FZB42
BGC0002474.2	0.44	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0000623.3	0.43	ribosomal	plantaricin W α, plantaricin W β	Lactobacillus plantarum

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 23.46 out of 29.25

Confidence: medium

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.02 out of 21.55

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.85 out of 28.19

Confidence: medium

AfsR

Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 20.11 out of 23.05

Confidence: medium

Additional weak hits (4):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.13 out of 25.88

Confidence: weak

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 15.55 out of 18.46

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.88 out of 25.75

Confidence: weak

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 15.70 out of 30.12

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

TFBS Finder

NRPS/PKS substrate predictions

CON62_RS15780: Asp

Search NORINE for peptide: strict or relaxed

AMP-binding (8..398): Asp

nrpys: Asp

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:: CAILFDYGLYQLPSTNTGEYPMYGLTECKRVSIL
Nearest Stachelhaus code(s):: Asp DYYPTTMRVK (71% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
ArcA	Repressor of carbon oxidation
SypG	Regulator of biofilm formation and host colonization
ZuR variant 1	Zinc-responsive repressor

NZ_NVOB01000020.1 - Region 1 - NRPS

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Location: 141,360 - 188,370 nt. (total: 47,011 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

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase

CON62_RS17065: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Transferases: aminotransferase

CON62_RS17070: aminotransferase

smcogs: SMCOG1019: aminotransferase

Hydrolases: esterase glucanase hydrolase

CON62_RS17060: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

CON62_RS17090: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

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

CON62_RS17100: Pullulanase, type I

smcogs: SMCOG1297: Pullulanase, type I

CON62_RS17125: alpha/beta hydrolase domain-containing protein

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

CON62_RS17205: HAD-superfamily hydrolase, subfamily IA, variant

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

Lyases: decarboxylase

CON62_RS17120: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Ligases: ligase

CON62_RS17115: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.65	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.64	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.63	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.63	NRPS	AbT1	Aureobasidium pullulans
BGC0002135.2	0.63	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000357.5	0.62	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001641.4	0.62	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.61	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001135.5	0.65	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.64	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.63	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.63	NRPS	AbT1	Aureobasidium pullulans
BGC0002135.2	0.63	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000357.5	0.62	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001641.4	0.62	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.61	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.58 out of 20.97

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.58 out of 20.97

Confidence: medium

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 28.23 out of 31.73

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 26.91 out of 32.93

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.28 out of 32.93

Confidence: medium

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 24.13 out of 29.25

Confidence: medium

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.85 out of 29.25

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.50 out of 28.19

Confidence: medium

Additional weak hits (4):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.06 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

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.88 out of 26.12

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.67 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 1, location 141359 - 188370:

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

Polymer prediction:: (X - Cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CON62_RS17115: X - Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (266..656): X

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

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FVMAFDISLLELESLLAGELNIYGPTETTICATV
Nearest Stachelhaus code(s):: Ala DILICALICK (44% 8Å match)
Stachelhaus code match:: 70% (weak)

AMP-binding (1303..1683): Cys

nrpys: Cys

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: 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:: TDISFDLSVYDGNTLHSGDISLGGATEASIWSIY
Nearest Stachelhaus code(s):: Cys DLYNLSLIWK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
HexR	Glucose-responsive regulator
LexA variant 3	Repressor of DNA damage response
SypG	Regulator of biofilm formation and host colonization
ZuR variant 1	Zinc-responsive repressor

NZ_NVOB01000020.1 - Region 2 - RiPP-like

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Location: 205,896 - 216,162 nt. (total: 10,267 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

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

Hydrolases: hydrolase

CON62_RS17375: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Similar gene clusters

Analysis type:

Reference	RiPP-like	Similarity score	Type	Compound(s)	Organism
BGC0001994.4		0.35	other (other)	β-ethynylserine	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0002373.3		0.19	NRPS	bonnevillamide D, bonnevillamide E	Streptomyces sp.

Reference	Aggregated	Similarity score	Type	Compound(s)	Organism
BGC0001994.4		0.35	other (other)	β-ethynylserine	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0002373.3		0.19	NRPS	bonnevillamide D, bonnevillamide E	Streptomyces sp.

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 25.47 out of 26.06

Confidence: strong

Additional weak hits (1):

AfsQ1

Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.20 out of 19.52

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
MogR	Repressor of flagellar motility genes

NZ_NVOB01000021.1 - Region 1 - terpene

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Location: 207,587 - 229,440 nt. (total: 21,854 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

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

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

CON62_RS18810: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

CON62_RS18815: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Lyases: lyase

CON62_RS18785: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000917.3	0.52	other (other)	molybdenum cofactor	Rhodobacter capsulatus
BGC0000888.5	0.49	other (other)	bacilysin	Bacillus sp. CS93
BGC0000916.5	0.46	other (other)	molybdenum cofactor	Staphylococcus carnosus
BGC0000812.3	0.45	other (other)	huperzine A	Shiraia sp. slf14
BGC0000231.5	0.42	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0001197.5	0.42	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001605.3	0.42	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0000234.5	0.41	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002138.2	0.40	PKS	fuelimycin A, fuelimicin B, fuelimicin C	Streptomyces albireticuli NRRL B-1670
BGC0001882.3	0.40	PKS	chrysoxanthone A, chrysoxanthone B, chrysoxanthone C	Penicillium rubens Wisconsin 54-1255

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000917.3	0.52	other (other)	molybdenum cofactor	Rhodobacter capsulatus
BGC0000888.5	0.49	other (other)	bacilysin	Bacillus sp. CS93
BGC0000916.5	0.46	other (other)	molybdenum cofactor	Staphylococcus carnosus
BGC0000812.3	0.45	other (other)	huperzine A	Shiraia sp. slf14
BGC0000231.5	0.42	PKS	griseusin A, griseusin B	Streptomyces griseus
BGC0001197.5	0.42	PKS	frankiamicin	Frankia sp. EAN1pec
BGC0001605.3	0.42	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0000234.5	0.41	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0002138.2	0.40	PKS	fuelimycin A, fuelimicin B, fuelimicin C	Streptomyces albireticuli NRRL B-1670
BGC0001882.3	0.40	PKS	chrysoxanthone A, chrysoxanthone B, chrysoxanthone C	Penicillium rubens Wisconsin 54-1255

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
triterpene	hopanoid		C30	hopanoid skeleton	unknown
triterpene	polypodane		C30	polypodane skeleton	unknown

Genes with terpene domains:

CON62_RS18825: T2TS

Domain 1 (6 - 615): Type 2 terpene synthase

Subtype: Squalene substrate

Reactions:: squalene → hopanoid; squalene → polypodane

Transcription Factor Binding Sites

Binding sites found:

CRP

Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.06 out of 19.26

Confidence: strong

Additional weak hits (3):

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 28.60 out of 39.62

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.88 out of 33.73

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 23.97 out of 35.63

Confidence: weak

Terpene

TFBS Finder

Glossary

No acronyms to display

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NZ_NVOB01000021.1 - Region 2 - lassopeptide

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Location: 337,084 - 360,991 nt. (total: 23,908 nt) Show pHMM detection rules used

lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

Lasso peptides

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 glycosyltransferase

CON62_RS19535: DegT/DnrJ/EryC1/StrS aminotransferase

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

CON62_RS19550: sugar transferase

smcogs: SMCOG1146: sugar transferase

Hydrolases: esterase hydrolase

CON62_RS19470: 2`,3`-cyclic-nucleotide 2`-phosphodiesterase

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

CON62_RS19530: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001356.4	0.69	ribosomal	paeninodin	Paenibacillus dendritiformis C454
BGC0001634.3	0.52	ribosomal	keywimysin	Streptomyces sp. NRRL F-5702
BGC0000571.3	0.50	ribosomal	burhizin	Paraburkholderia rhizoxinica HKI 454
BGC0000742.3	0.48	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000743.3	0.48	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000800.5	0.45	saccharide	xanthan	Xanthomonas campestris
BGC0001410.3	0.45	saccharide	polysaccharide A	Bacteroides fragilis
BGC0000729.3	0.44	saccharide	capsular polysaccharide	Klebsiella pneumoniae
BGC0000728.5	0.44	saccharide	capsular polysaccharide	Klebsiella pneumoniae subsp. ozaenae
BGC0000741.3	0.44	saccharide	capsular polysaccharide	Streptococcus agalactiae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001356.4	0.69	ribosomal	paeninodin	Paenibacillus dendritiformis C454
BGC0001634.3	0.52	ribosomal	keywimysin	Streptomyces sp. NRRL F-5702
BGC0000571.3	0.50	ribosomal	burhizin	Paraburkholderia rhizoxinica HKI 454
BGC0000742.3	0.48	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000743.3	0.48	saccharide	capsular polysaccharide	Streptococcus agalactiae
BGC0000800.5	0.45	saccharide	xanthan	Xanthomonas campestris
BGC0001410.3	0.45	saccharide	polysaccharide A	Bacteroides fragilis
BGC0000729.3	0.44	saccharide	capsular polysaccharide	Klebsiella pneumoniae
BGC0000728.5	0.44	saccharide	capsular polysaccharide	Klebsiella pneumoniae subsp. ozaenae
BGC0000741.3	0.44	saccharide	capsular polysaccharide	Streptococcus agalactiae

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lasso peptide predictions

Lassopeptide(s) for CON62_RS31715

CON62_RS31715

Leader:

MKKEWKQPVLEVLNINMTMA

Full core:

GPGHKYPDAVQPDPDDPVKYS

Putative macrolactam:

GPGHKYPD

antiSMASH-DB 4.0 matches for CON62_RS31715

100.0%

NC_018693.1and 59 others:

NC_022781.1 Lassopeptides: BTOYO_RS27255_lassopeptideNZ_CM000728.1 Lassopeptides: BCERE0017_RS31690_lassopeptideNZ_CM000730.1 Lassopeptides: BCERE0019_RS36035_lassopeptideNZ_CM000731.1 Lassopeptides: BCERE0020_RS32115_lassopeptideNZ_CM000735.1 Lassopeptides: BCERE0024_RS32175_lassopeptideNZ_CM000737.1 Lassopeptides: BCERE0026_RS31860_lassopeptideNZ_CP020743.1 Lassopeptides: B7492_RS34605_lassopeptideNZ_CP035994.1 Lassopeptides: EXW32_RS18065_lassopeptideNZ_CP035999.1 Lassopeptides: EXW27_RS24230_lassopeptideNZ_CP036014.1 Lassopeptides: EXW33_RS03280_lassopeptideNZ_CP036043.1 Lassopeptides: EXW51_RS18015_lassopeptideNZ_CP036052.1 Lassopeptides: EXW64_RS17810_lassopeptideNZ_CP036094.1 Lassopeptides: EXW54_RS18030_lassopeptideNZ_CP036099.1 Lassopeptides: EXW47_RS18145_lassopeptideNZ_CP036145.1 Lassopeptides: EXW57_RS18045_lassopeptideNZ_CP043830.1 Lassopeptides: F0362_RS17980_lassopeptideNZ_CP052061.1 Lassopeptides: G9298_RS06635_lassopeptideNZ_CP064875.1 Lassopeptides: I0K03_RS17615_lassopeptideNZ_CP072061.1 Lassopeptides: J5V93_RS17010_lassopeptideNZ_CP081872.1 Lassopeptides: K6T24_RS17660_lassopeptideNZ_CP084035.1 Lassopeptides: LCF45_RS17830_lassopeptideNZ_CP087103.1 Lassopeptides: HQN46_RS17525_lassopeptideNZ_CP092833.1 Lassopeptides: MLD62_RS18880_lassopeptideNZ_CP093844.1 Lassopeptides: MN033_RS16555_lassopeptideNZ_CP103777.1 Lassopeptides: NYR47_RS18680_lassopeptideNZ_FVZK01000001.1 Lassopeptides: B5493_RS29120_lassopeptideNZ_JAAVIO010000007.1 Lassopeptides: HB668_RS21240_lassopeptideNZ_JAKJPX010000001.1 Lassopeptides: L4B26_RS06135_lassopeptideNZ_JAOPRA010000003.1 Lassopeptides: OCE16_RS10320_lassopeptideNZ_JH791945.1 Lassopeptides: IEC_RS31690_lassopeptideNZ_JH791991.1 Lassopeptides: IEY_RS30355_lassopeptideNZ_JH792120.1 Lassopeptides: IGO_RS31120_lassopeptideNZ_JH792156.1 Lassopeptides: IK3_RS30825_lassopeptideNZ_JH792251.1 Lassopeptides: III_RS32860_lassopeptideNZ_KB976660.1 Lassopeptides: IIS_RS33070_lassopeptideNZ_KB976671.1 Lassopeptides: IG5_RS30930_lassopeptideNZ_KB976677.1 Lassopeptides: IK1_RS32500_lassopeptideNZ_LDHL01000037.1 Lassopeptides: ABD98_RS28390_lassopeptideNZ_LDKD02000001.1 Lassopeptides: ABH17_RS30845_lassopeptideNZ_LR733376.1 Lassopeptides: BOSE29B_RS17275_lassopeptideNZ_MSAB01000002.1 Lassopeptides: BTH38_RS31490_lassopeptideNZ_NFCO01000063.1 Lassopeptides: BK712_RS32350_lassopeptideNZ_NIUP01000001.1 Lassopeptides: CEU84_RS28955_lassopeptideNZ_NIZC01000006.1 Lassopeptides: CEU98_RS29995_lassopeptideNZ_NUAO01000004.1 Lassopeptides: CN544_RS31140_lassopeptideNZ_NUCE01000047.1 Lassopeptides: CN588_RS29240_lassopeptideNZ_NVAU01000015.1 Lassopeptides: COK21_RS29840_lassopeptideNZ_NVFD01000067.1 Lassopeptides: COL35_RS30615_lassopeptideNZ_NVFH01000014.1 Lassopeptides: COL40_RS31160_lassopeptideNZ_NVGS01000015.1 Lassopeptides: COL67_RS30295_lassopeptideNZ_NVGU01000014.1 Lassopeptides: COL71_RS30385_lassopeptideNZ_NVHY01000003.1 Lassopeptides: COM05_RS29590_lassopeptideNZ_NVIC01000011.1 Lassopeptides: COL99_RS31725_lassopeptideNZ_NVIH01000020.1 Lassopeptides: COM10_RS31670_lassopeptideNZ_NVIT01000003.1 Lassopeptides: COM31_RS29110_lassopeptideNZ_NVJC01000012.1 Lassopeptides: COM38_RS29390_lassopeptideNZ_NVOB01000021.1 Lassopeptides: CON62_RS31715_lassopeptideNZ_NVOD01000011.1 Lassopeptides: CON85_RS30265_lassopeptideNZ_NVOV01000023.1 Lassopeptides: CON78_RS31120_lassopeptide

Lassopeptides: MC28_RS36260_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHKYPDAVQPDPDDPVKYS

1

GPGHKYPDAVQPDPDDPVKYS

21

95.2%

NZ_CAKJTI010000013.1:

Lassopeptides: LRP84_RS13300_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHK PDAVQPDPDDPVKYS

1

GPGHKTPDAVQPDPDDPVKYS

21

95.2%

NZ_CP033906.1:

Lassopeptides: CEF21_RS15100_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGH+YPDAVQPDPDDPVKYS

1

GPGHRYPDAVQPDPDDPVKYS

21

with 55 more sequence matches

Only the first 10 are displayed here.

95.2%

NZ_CP035962.1and 2 others:

NZ_JAHWJB010000002.1 Lassopeptides: I6L50_RS24160_lassopeptideNZ_JH792148.1 Lassopeptides: IGC_RS31555_lassopeptide

Lassopeptides: EXW30_RS17395_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHKYPDA QPDPDDPVKYS

1

GPGHKYPDAAQPDPDDPVKYS

21

95.2%

NZ_CP036073.1and 15 others:

NZ_CP051013.1 Lassopeptides: HCM98_RS19370_lassopeptideNZ_CP089518.1 Lassopeptides: LUS72_RS17965_lassopeptideNZ_FMSK01000028.1 Lassopeptides: CCY74_RS32440_lassopeptideNZ_KB976530.1 Lassopeptides: ICS_RS31505_lassopeptideNZ_KB976980.1 Lassopeptides: KQ1_RS31885_lassopeptideNZ_LCYN01000004.1 Lassopeptides: B4147_RS31680_lassopeptideNZ_LDKE01000024.1 Lassopeptides: ABB04_RS11095_lassopeptideNZ_NTVN01000014.1 Lassopeptides: CN415_RS28390_lassopeptideNZ_NUAK01000012.1 Lassopeptides: CN576_RS29145_lassopeptideNZ_NUCU01000027.1 Lassopeptides: CN607_RS28820_lassopeptideNZ_NUEG01000051.1 Lassopeptides: CN905_RS29150_lassopeptideNZ_NUKY01000024.1 Lassopeptides: COC45_RS31355_lassopeptideNZ_NURM01000056.1 Lassopeptides: COE96_RS29110_lassopeptideNZ_NVFC01000047.1 Lassopeptides: COL36_RS30960_lassopeptideNZ_NVHZ01000037.1 Lassopeptides: COM04_RS29175_lassopeptide

Lassopeptides: EXW45_RS19285_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHK PDAVQPDPDDPVKYS

1

GPGHKIPDAVQPDPDDPVKYS

21

90.5%

NZ_CM000719.1and 8 others:

NZ_CP036084.1 Lassopeptides: EXW59_RS23060_lassopeptideNZ_CP036121.1 Lassopeptides: EXW55_RS16555_lassopeptideNZ_JH791923.1 Lassopeptides: IE3_RS30910_lassopeptideNZ_JH792310.1 Lassopeptides: IIG_RS32465_lassopeptideNZ_JH804672.1 Lassopeptides: IG3_RS34520_lassopeptideNZ_KB976152.1 Lassopeptides: IG9_RS30805_lassopeptideNZ_NULE01000003.1 Lassopeptides: COC58_RS30270_lassopeptideNZ_NVFI01000023.1 Lassopeptides: COL41_RS29780_lassopeptide

Lassopeptides: BCERE0007_RS31210_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHK PDAVQPDPDD VKYS

1

GPGHKLPDAVQPDPDDAVKYS

21

90.5%

NZ_CP031443.1and 4 others:

NZ_FWZD01000067.1 Lassopeptides: BACERE00177_RS21400_lassopeptideNZ_NTYE01000016.1 Lassopeptides: CN490_RS29030_lassopeptideNZ_NUEY01000038.1 Lassopeptides: CN888_RS28205_lassopeptideNZ_QOSD01000019.1 Lassopeptides: DN410_RS14275_lassopeptide

Lassopeptides: MLA2C4_RS19250_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHK PDA+QPDPDDPVKYS

1

GPGHKTPDAIQPDPDDPVKYS

21

90.5%

NZ_CP035978.1and 5 others:

NZ_CP035997.1 Lassopeptides: EXW63_RS23105_lassopeptideNZ_CP036064.1 Lassopeptides: EXW39_RS18255_lassopeptideNZ_KE150045.1 Lassopeptides: IC3_RS30965_lassopeptideNZ_NUPA01000044.1 Lassopeptides: COE20_RS30510_lassopeptideNZ_NVCB01000017.1 Lassopeptides: COK41_RS30460_lassopeptide

Lassopeptides: EXW37_RS17545_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHKYPD++QPDPDDPVKYS

1

GPGHKYPDSIQPDPDDPVKYS

21

90.5%

NZ_JACYOF010000019.1:

Lassopeptides: IGI01_RS27610_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGHK PDAVQPDPDDPVK+S

1

GPGHKTPDAVQPDPDDPVKFS

21

90.5%

NZ_JH792232.1:

Lassopeptides: IIM_RS29450_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGH+ PDAVQPDPDDPVKYS

1

GPGHRIPDAVQPDPDDPVKYS

21

85.7%

NZ_CP035953.1and 2 others:

NZ_FMJF01000032.1 Lassopeptides: CCY59_RS30575_lassopeptideNZ_JH804628.1 Lassopeptides: IEM_RS31505_lassopeptide

Lassopeptides: EXW58_RS16745_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPG + PDAVQPDPDDPVKYS

1

GPGRRIPDAVQPDPDDPVKYS

21

85.7%

NZ_NUMB01000009.1:

Lassopeptides: COD15_RS30595_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPGH+ PDAVQPDPDD VKYS

1

GPGHRLPDAVQPDPDDAVKYS

21

81.0%

NZ_JAFDQP010000012.1:

Lassopeptides: JRF95_RS21440_lassopeptide

1

GPGHKYPDAVQPDPDDPVKYS

21

GPG K PD+VQPDPDDPVK+S

1

GPGRKTPDSVQPDPDDPVKFS

21

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 28.44 out of 33.14

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 22.42 out of 24.78

Confidence: strong

Lasso peptides

RREFinder

TFBS Finder

Core peptide predictions

CON62_RS31715 - Class II: Cleavage pHMM score: -15.80; RODEO score: 15; Monoisotopic mass: 2263.0 Da; Molecular weight: 2264.4 Da; Number of bridges: 0

RRE predictions

: RRE type: Stand_Alone_Lasso_RRE; Location: 13 - 96; Score: 89.7

TFBS definitions

Regulator	Description
LexA variant 2	Repressor of DNA damage response
ZuR variant 2	Zinc-responsive repressor

NZ_NVOB01000033.1 - Region 1 - azole-containing-RiPP

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Location: 69,478 - 92,984 nt. (total: 23,507 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

binding site

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Gene details

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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: oxidoreductase

CON62_RS24435: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: methyltransferase

CON62_RS24420: methyltransferase

smcogs: SMCOG1089: methyltransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002013.4	0.44	ribosomal	curacozole	Streptomyces curacoi
BGC0000607.5	0.43	ribosomal	micrococcin P1	Macrococcus caseolyticus
BGC0001535.3	0.43	other (other)	branched-chain fatty acids	Streptomyces filamentosus
BGC0001146.5	0.41	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0001173.5	0.41	ribosomal	plantazolicin	Bacillus pumilus ATCC 7061
BGC0000606.5	0.39	ribosomal	lactazole	Streptomyces lactacystinaeus
BGC0001860.4	0.39	ribosomal	thiomuracin	Thermobispora bispora DSM 43833
BGC0000613.5	0.38	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39
BGC0000628.4	0.38	ribosomal	lactocillin	Lactobacillus paragasseri JV-V03
BGC0001145.5	0.38	ribosomal	cyclothiazomycin b1	Streptomyces mobaraensis NBRC 13819 = DSM 40847

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002013.4	0.44	ribosomal	curacozole	Streptomyces curacoi
BGC0000607.5	0.43	ribosomal	micrococcin P1	Macrococcus caseolyticus
BGC0001535.3	0.43	other (other)	branched-chain fatty acids	Streptomyces filamentosus
BGC0001146.5	0.41	ribosomal	cyclothiazomycin C	Streptomyces sp. NRRL WC-3908
BGC0001173.5	0.41	ribosomal	plantazolicin	Bacillus pumilus ATCC 7061
BGC0000606.5	0.39	ribosomal	lactazole	Streptomyces lactacystinaeus
BGC0001860.4	0.39	ribosomal	thiomuracin	Thermobispora bispora DSM 43833
BGC0000613.5	0.38	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39
BGC0000628.4	0.38	ribosomal	lactocillin	Lactobacillus paragasseri JV-V03
BGC0001145.5	0.38	ribosomal	cyclothiazomycin b1	Streptomyces mobaraensis NBRC 13819 = DSM 40847

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

No hits above weak threshold.

Weak hits (2):

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 23.71 out of 31.73

Confidence: weak

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 18.17 out of 30.12

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

RREFinder

TFBS Finder

Azole RiPPs

RRE predictions

: RRE type: Heterocycloanthracin_C_RRE; Location: 0 - 100; Score: 181.1; RRE type: Thiopeptide_F_RRE; Location: 10 - 89; Score: 39.4

TFBS definitions

Regulator	Description

Core peptide predictions

No core peptides found.

NZ_NVOB01000003.1 - Region 1 - NRPS-like

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Location: 96,274 - 135,014 nt. (total: 38,741 nt) Show pHMM detection rules used

Region on contig edge.

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

binding site

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Gene details

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Gene overview

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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: oxidase

CON62_RS03640: FAD linked oxidase domain protein

smcogs: SMCOG1138: FAD linked oxidase domain protein

Transferases: phosphorylase phosphotransferase

CON62_RS03650: Glucose-specific phosphotransferase enzyme IIA

smcogs: SMCOG1145: Glucose-specific phosphotransferase enzyme IIA

CON62_RS03675: thiamine-phosphate pyrophosphorylase

smcogs: SMCOG1280: thiamine-phosphate pyrophosphorylase

Hydrolases: glucosidase

CON62_RS03645: Alpha-glucosidase

smcogs: SMCOG1257: Alpha-glucosidase

Ligases: ligase synthase

CON62_RS03680: cysteine synthase

smcogs: SMCOG1081: cysteine synthase

CON62_RS03695: 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	0.61	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001132.4	0.60	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001261.3	0.60	NRPS	AM-toxin	Alternaria alternata
BGC0001128.4	0.60	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0000357.5	0.60	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001641.4	0.60	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.59	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.61	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001132.4	0.60	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001261.3	0.60	NRPS	AM-toxin	Alternaria alternata
BGC0001128.4	0.60	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0000357.5	0.60	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001641.4	0.60	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.59	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.69 out of 21.55

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.91 out of 23.79

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 24.83 out of 27.78

Confidence: strong

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.81 out of 20.97

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 27.58 out of 32.93

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.52 out of 32.93

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 22.91 out of 25.88

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.55 out of 25.88

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.08 out of 26.85

Confidence: medium

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 27.21 out of 33.14

Confidence: medium

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 21.29 out of 27.04

Confidence: medium

Additional weak hits (4):

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.78 out of 31.73

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.70 out of 25.75

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.13 out of 25.88

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 96273 - 135014:

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

Polymer prediction:: (X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CON62_RS03695: X

AMP-binding (225..621): X

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

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LWMPFDASVWEAALAIGGEHNVYGPTECTVVTTT
Nearest Stachelhaus code(s):: Leu DAWYLGNVVK (71% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ArcA	Repressor of carbon oxidation
CcpA	Catabolite control protein A
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
DasR	N-acetylglucosamine dependent repressor
IolR	Regulator of the inositol catabolism
LexA variant 3	Repressor of DNA damage response
PsrA	Oleic acid responsive regulator
RutR	Regulator of the pyrimidine and purine metabolism
ZuR variant 2	Zinc-responsive repressor

NZ_NVOB01000040.1 - Region 1 - RiPP-like

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Location: 1,823 - 12,146 nt. (total: 10,324 nt) Show pHMM detection rules used

Region on contig edge.

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

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

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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

Transferases: aminotransferase

CON62_RS26810: aminotransferase

smcogs: SMCOG1019: aminotransferase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000896.5	0.29	other (other)	cycloserine	Streptomyces lavendulae subsp. lavendulae
BGC0000721.4	0.26	saccharide	tobramycin	Streptoalloteichus tenebrarius
BGC0001964.2	0.25	PKS	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium
BGC0000172.5	0.23	PKS	Basiliskamide A, Basiliskamide B	Brevibacillus laterosporus PE36
BGC0000381.5	0.23	NRPS	lichenysin	Bacillus licheniformis DSM 13 = ATCC 14580
BGC0000433.5	0.22	NRPS	surfactin	Bacillus velezensis FZB42
BGC0000455.6	0.22	NRPS, saccharide	vancomycin	Amycolatopsis orientalis HCCB10007 (ATCC43491)
BGC0002588.2	0.22	other (other)	enduracididine	uncultured bacterium
BGC0001233.5	0.22	NRPS	feglymycin	Streptomyces sp. DSM 11171
BGC0001461.5	0.21	NRPS	Actinoidin B	Amycolatopsis keratiniphila subsp. nogabecina

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000896.5	0.29	other (other)	cycloserine	Streptomyces lavendulae subsp. lavendulae
BGC0000721.4	0.26	saccharide	tobramycin	Streptoalloteichus tenebrarius
BGC0001964.2	0.25	PKS	alkylpyrone-407, alkylpyrone-393	Cystobacterineae bacterium
BGC0000172.5	0.23	PKS	Basiliskamide A, Basiliskamide B	Brevibacillus laterosporus PE36
BGC0000381.5	0.23	NRPS	lichenysin	Bacillus licheniformis DSM 13 = ATCC 14580
BGC0000433.5	0.22	NRPS	surfactin	Bacillus velezensis FZB42
BGC0000455.6	0.22	NRPS, saccharide	vancomycin	Amycolatopsis orientalis HCCB10007 (ATCC43491)
BGC0002588.2	0.22	other (other)	enduracididine	uncultured bacterium
BGC0001233.5	0.22	NRPS	feglymycin	Streptomyces sp. DSM 11171
BGC0001461.5	0.21	NRPS	Actinoidin B	Amycolatopsis keratiniphila subsp. nogabecina

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 22.69 out of 27.55

Confidence: medium

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.44 out of 32.93

Confidence: medium

Additional weak hits (2):

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.06 out of 29.72

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.92 out of 25.88

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
GnfM	Regulator of nitrogen-fixation genes
LexA variant 3	Repressor of DNA damage response

NZ_NVOB01000040.1 - Region 2 - betalactone

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Location: 71,769 - 97,007 nt. (total: 25,239 nt) Show pHMM detection rules used

betalactone: (HMGL-like and AMP-binding)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

CON62_RS27215: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: acetyltransferase carboxylase transferase

CON62_RS27135: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

CON62_RS27190: acetyl-CoA carboxylase, carboxyl transferase,

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

CON62_RS27210: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Lyases: hydratase

CON62_RS27195: enoyl-CoA hydratase

smcogs: SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase

CON62_RS27185: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CON62_RS27200: 2-isopropylmalate synthase

smcogs: SMCOG1271: 2-isopropylmalate synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002284.3	0.55	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000131.5	0.46	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0000706.3	0.46	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0000234.5	0.43	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000623.3	0.42	ribosomal	plantaricin W α, plantaricin W β	Lactobacillus plantarum
BGC0001103.5	0.42	NRPS, PKS	mycosubtilin	Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0001226.4	0.42	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0002700.2	0.41	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0001464.3	0.41	other (other)	tetrabromopyrrole	Pseudoalteromonas sp. PS5

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002284.3	0.55	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000131.5	0.46	PKS	pyrrolomycin	Streptomyces sp. UC 11065
BGC0000706.3	0.46	saccharide	kanamycin	Streptomyces kanamyceticus
BGC0000234.5	0.43	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0000623.3	0.42	ribosomal	plantaricin W α, plantaricin W β	Lactobacillus plantarum
BGC0001103.5	0.42	NRPS, PKS	mycosubtilin	Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0001226.4	0.42	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0000563.4	0.42	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0002700.2	0.41	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0001464.3	0.41	other (other)	tetrabromopyrrole	Pseudoalteromonas sp. PS5

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 26.74 out of 28.14

Confidence: strong

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.21 out of 26.06

Confidence: strong

Additional weak hits (3):

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.37 out of 25.88

Confidence: weak

HipB

Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.05 out of 33.73

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 25.24 out of 33.14

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
MogR	Repressor of flagellar motility genes
PerR	Peroxide regulator

NZ_NVOB01000041.1 - Region 1 - RiPP-like

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Location: 21,479 - 29,170 nt. (total: 7,692 nt) Show pHMM detection rules used

Region on contig edge.

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

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
BGC0001638.4	0.40	ribosomal	klebsazolicin	Klebsiella pneumoniae subsp. ozaenae
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0002322.3	0.36	ribosomal	citrocin	Citrobacter pasteurii
BGC0000513.3	0.36	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.36	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0001289.5	0.36	ribosomal	penisin	Paenibacillus ehimensis
BGC0000504.5	0.35	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000501.3	0.35	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0002698.2	0.35	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000500.5	0.34	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001638.4	0.40	ribosomal	klebsazolicin	Klebsiella pneumoniae subsp. ozaenae
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0002322.3	0.36	ribosomal	citrocin	Citrobacter pasteurii
BGC0000513.3	0.36	ribosomal	Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3	Saccharopolyspora erythraea NRRL 2338
BGC0000551.5	0.36	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0001289.5	0.36	ribosomal	penisin	Paenibacillus ehimensis
BGC0000504.5	0.35	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000501.3	0.35	ribosomal	catenulipeptin	Catenulispora acidiphila DSM 44928
BGC0002698.2	0.35	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000500.5	0.34	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.97 out of 26.06

Confidence: medium

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.82 out of 21.84

Confidence: medium

Additional weak hits (1):

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 26.98 out of 39.62

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
MexT	Global virulence regulator
MogR	Repressor of flagellar motility genes

NZ_NVOB01000050.1 - Region 1 - lanthipeptide-class-ii

Download region GenBank file

Download region SVG

Location: 49,204 - 72,032 nt. (total: 22,829 nt) Show pHMM detection rules used

Region on contig edge.

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Lyases: cyclase

CON62_RS29240: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000626.3	0.89	ribosomal	thuricin	Bacillus thuringiensis
BGC0001787.3	0.59	ribosomal	suicin 3908	Streptococcus suis
BGC0001210.5	0.52	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000498.5	0.51	ribosomal	bovicin HJ50	Streptococcus equinus
BGC0000539.5	0.50	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0000554.4	0.50	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000561.5	0.50	ribosomal	thermophilin 1277	Streptococcus thermophilus
BGC0001579.4	0.50	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000521.3	0.49	ribosomal	lacticin 481	Lactococcus lactis subsp. lactis
BGC0000500.5	0.47	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000626.3	0.89	ribosomal	thuricin	Bacillus thuringiensis
BGC0001787.3	0.59	ribosomal	suicin 3908	Streptococcus suis
BGC0001210.5	0.52	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000498.5	0.51	ribosomal	bovicin HJ50	Streptococcus equinus
BGC0000539.5	0.50	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0000554.4	0.50	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000561.5	0.50	ribosomal	thermophilin 1277	Streptococcus thermophilus
BGC0001579.4	0.50	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000521.3	0.49	ribosomal	lacticin 481	Lactococcus lactis subsp. lactis
BGC0000500.5	0.47	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for CON62_RS29240

CON62_RS29235

Leader:

METEKYLQVVEDEELEQLVGG

Core:

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

Core with dehydrations:

AGPGWVEDhbLDhbKDCysPWKQPAACysVIIMGQKICysKKCysY

antiSMASH-DB 4.0 matches for CON62_RS29235

100.0%

NZ_CM000731.1and 2 others:

NZ_CP043834.1 Lanthipeptides: F0362_RS30375_lanthipeptideNZ_NVOB01000050.1 Lanthipeptides: CON62_RS29235_lanthipeptide

Lanthipeptides: BCERE0020_RS28875_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

97.1%

NZ_CP036053.1and 7 others:

NZ_JAOPRA010000024.1 Lanthipeptides: OCE16_RS27090_lanthipeptideNZ_KB976667.1 Lanthipeptides: IG5_RS06165_lanthipeptideNZ_LDKD02000003.1 Lanthipeptides: ABH17_RS27060_lanthipeptideNZ_NUAO01000019.1 Lanthipeptides: CN544_RS19345_lanthipeptideNZ_NVFH01000027.1 Lanthipeptides: COL40_RS24675_lanthipeptideNZ_NVHY01000021.1 Lanthipeptides: COM05_RS26660_lanthipeptideNZ_NVOV01000033.1 Lanthipeptides: CON78_RS26470_lanthipeptide

Lanthipeptides: EXW64_RS27135_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

AGPGWVETLTKDCPWKQP ACVIIMGQKICKKCY

1

AGPGWVETLTKDCPWKQPGACVIIMGQKICKKCY

34

97.1%

NZ_KB976276.1:

Lanthipeptides: IIC_RS09105_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

AGPGWVETLTKDCPWKQP ACVIIMGQKICKKCY

1

AGPGWVETLTKDCPWKQPVACVIIMGQKICKKCY

34

with 37 more sequence matches

Only the first 10 are displayed here.

85.3%

NZ_JH792312.1and 1 other:

NZ_QNRN01000010.1 Lanthipeptides: DET63_RS17570_lanthipeptide

Lanthipeptides: IIG_RS24665_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

AGPGWVETLTKDCPW P ACV IMGQ+ICKKCY

1

AGPGWVETLTKDCPWNVPVACVTIMGQRICKKCY

34

82.4%

NZ_CP036100.1and 1 other:

NZ_CP072062.1 Lanthipeptides: J5V93_RS29280_lanthipeptide

Lanthipeptides: EXW47_RS29185_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

AGPGWVET+TKDCPW P ACV IMGQ+ICKKCY

1

AGPGWVETVTKDCPWNVPVACVTIMGQRICKKCY

34

79.4%

NZ_CM000748.1and 1 other:

NZ_JAIPUK010000011.1 Lanthipeptides: K9P71_RS26815_lanthipeptide

Lanthipeptides: BTHUR0003_RS30910_lanthipeptide

2

GPGWVETLTKDCPWKQPAACVIIMGQKICKKC

33

GPGWVETLTKDCPW P ACV IMGQ+ICKKC

2

GPGWVETLTKDCPWNMPVACVTIMGQRICKKC

33

70.6%

NZ_KB976165.1:

Lanthipeptides: ICC_RS24850_lanthipeptide

2

GPGWVETLTKDCPWKQPAACVIIMGQKICKKC

33

GPGWVETLTKDCP +P AC+ I GQ ICKKC

2

GPGWVETLTKDCPGYKPYACITIAGQTICKKC

33

64.7%

NZ_CM000758.1and 1 other:

NZ_MOOT01000057.1 Lanthipeptides: BK765_RS20265_lanthipeptide

Lanthipeptides: BTHUR0013_RS15850_lanthipeptide

2

GPGWVETLTKDCPWKQPAACVIIMGQKICKKC

33

GPGW+ TLTKDCP +P AC+ I GQ ICKKC

2

GPGWIATLTKDCPANKPYACITIAGQTICKKC

33

58.8%

NZ_FNYB01000007.1and 1 other:

NZ_KB976303.1 Lanthipeptides: IGY_RS28100_lanthipeptide

Lanthipeptides: BMZ34_RS15340_lanthipeptide

2

GPGWVETLTKDCPWKQPAACVIIMGQKICKKCY

34

GPG++ETLTKDCP P CV I G CK+CY

2

GPGYIETLTKDCPRVTPQICVPINGIWTCKRCY

34

50.0%

NC_017621.1and 16 others:

NZ_CP039462.1 Lanthipeptides: E8M06_RS05390_lanthipeptideNZ_JABTZM010000032.1 Lanthipeptides: HRQ47_RS09675_lanthipeptideNZ_JAEVFQ010000010.1 Lanthipeptides: JNO64_RS06375_lanthipeptideNZ_JAFFHD010000003.1 Lanthipeptides: JN532_RS02075_lanthipeptideNZ_JAGFVG010000007.1 Lanthipeptides: J5581_RS04225_lanthipeptideNZ_JAIJZO010000001.1 Lanthipeptides: K5Q34_RS00965_lanthipeptideNZ_JAIMDS010000024.1 Lanthipeptides: K6V32_RS10650_lanthipeptideNZ_JAJUWV010000001.1 Lanthipeptides: LZF89_RS05505_lanthipeptideNZ_JAMDIS010000017.1 Lanthipeptides: M5P45_RS08180_lanthipeptideNZ_JAMYIU010000001.1 Lanthipeptides: NKE44_RS01780_lanthipeptideNZ_JAMYIX010000001.1 Lanthipeptides: NKE54_RS02675_lanthipeptideNZ_JAMYIY010000001.1 Lanthipeptides: NKE64_RS02785_lanthipeptideNZ_JAMYJP010000014.1 Lanthipeptides: NKE68_RS07350_lanthipeptideNZ_LR738722.1 Lanthipeptides: STREPSUIS_RS03955_lanthipeptideNZ_VZMP01000023.1 Lanthipeptides: F6P50_RS09295_lanthipeptideNZ_VZNS01000007.1 Lanthipeptides: F6P79_RS05700_lanthipeptide

Lanthipeptides: SSUD12_RS06540_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKC

33

AG G+V+TLTKDCP CV I CK C

1

AGSGFVKTLTKDCPGFLSNVCVNIGFISGCKNC

33

50.0%

NZ_AQQB01000068.1and 6 others:

NZ_BCEY01000024.1 Lanthipeptides: GOZ53_RS05100_lanthipeptideNZ_BCEZ01000067.1 Lanthipeptides: GOZ55_RS11230_lanthipeptideNZ_BCFC01000053.1 Lanthipeptides: GOZ35_RS07920_lanthipeptideNZ_BCFG01000017.1 Lanthipeptides: GOZ50_RS03220_lanthipeptideNZ_BCFI01000009.1 Lanthipeptides: GOZ54_RS02495_lanthipeptideNZ_CP019557.1 Lanthipeptides: BZG42_RS05725_lanthipeptide

Lanthipeptides: K738_RS01000000110290_lanthipeptide

1

AGPGWVETLTKDCPWKQPAACVIIMGQKICKKC

33

AG G V+TLTKDCP CV I CK C

1

AGSGLVKTLTKDCPGFLSNICVNIGFISGCKNC

33

47.1%

NZ_CP040409.1and 4 others:

NZ_CP040414.1 Lanthipeptides: FE331_RS04020_lanthipeptideNZ_CP040415.1 Lanthipeptides: allorf_0721024_0721203_lanthipeptideNZ_CP040417.1 Lanthipeptides: FE328_RS00745_lanthipeptideNZ_CP040424.1 Lanthipeptides: FE321_RS03445_lanthipeptide

Lanthipeptides: FE336_RS03450_lanthipeptide

2

GPGWVETLTKDCPWKQPAACVIIMGQKICKKC

33

GPG ++TLTKDCP CV + CKKC

2

GPGLLKTLTKDCPGTVSDVCVNLAVVSTCKKC

33

38.2%

NZ_CP040409.1and 4 others:

NZ_CP040414.1 Lanthipeptides: FE331_RS04030_lanthipeptideNZ_CP040415.1 Lanthipeptides: FE330_RS03440_lanthipeptideNZ_CP040417.1 Lanthipeptides: FE328_RS00755_lanthipeptideNZ_CP040424.1 Lanthipeptides: FE321_RS03455_lanthipeptide

Lanthipeptides: FE336_RS03460_lanthipeptide

1

AGPGWVETLTKDCPWKQPAAC

21

GPG V TLTKDCP P C

1

VGPGLVRTLTKDCPNVVPKVC

21

MIBiG 4.0 matches for CON62_RS29235

20.6%

BGC0002110.3 (QKV49893.1):

Lanthipeptide: birimositide

4

GWVETLTKDC

13

GW TLTK+C

17

GWC-TLTKEC

25

10.8%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

16

KQPAACVIIMG

26

PA +I+G

1

TDPAVTGLILG

11

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 21.47 out of 25.31

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.36 out of 29.38

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 23.01 out of 28.19

Confidence: medium

Additional weak hits (5):

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.71 out of 23.43

Confidence: weak

DosR

Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 19.75 out of 29.51

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.21 out of 30.11

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 23.71 out of 30.97

Confidence: weak

HipB

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

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

CON62_RS29235 - Class II: Cleavage pHMM score: 2.90; RODEO score: 0; Monoisotopic mass: 3728.9 Da; Molecular weight: 3731.5 Da; Number of bridges: 2

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor
FuR variant 1	Ferric Uptake Regulator
ZuR variant 1	Zinc-responsive repressor

NZ_NVOB01000060.1 - Region 1 - NRP-metallophore,NRPS

Download region GenBank file

Download region SVG

Location: 1 - 20,270 nt. (total: 20,270 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

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase

CON62_RS30870: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: PPTase

CON62_RS30875: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

Hydrolases: esterase hydrolase

CON62_RS30885: thioesterase

smcogs: SMCOG1004: thioesterase

CON62_RS30910: isochorismatase

smcogs: SMCOG1027: isochorismatase

Lyases: lyase

CON62_RS30925: argininosuccinate lyase/adenylosuccinate lyase

smcogs: SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Isomerases: isomerase

CON62_RS30865: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase

CON62_RS30920: 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	0.72	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.70	NRPS	enniatin	Fusarium equiseti
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001261.3	0.67	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.66	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001132.4	0.66	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.64	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.64	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001185.5	0.64	NRPS	bacillibactin	Bacillus velezensis FZB42

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.69	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0001833.4	0.68	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001261.3	0.67	NRPS	AM-toxin	Alternaria alternata
BGC0001825.4	0.66	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001132.4	0.66	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001128.4	0.66	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.65	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.65	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001185.5	0.65	NRPS	bacillibactin	Bacillus velezensis FZB42

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.16 out of 26.06

Confidence: strong

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.44 out of 26.06

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.20 out of 24.78

Confidence: medium

Additional weak hits (2):

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.02 out of 30.22

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.04 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 1, location 0 - 20270:

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

Polymer prediction:: (Glu)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CON62_RS30920: Glu

Search NORINE for peptide: strict or relaxed

AMP-binding (466..866): Glu

nrpys: Glu

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
Small clusters prediction:: glu,gln (Glu, Gln)
Single AA prediction:: glu (Glu)

Stachelhaus prediction details:

Stachelhaus sequence:: FTLTFDASVWEWEFSVGGEYNTYGPTETTVEVSS
Nearest Stachelhaus code(s):: Glu DAWHFGSVEK (68% 8Å match); Gln DAWHFGSVEK (68% 8Å match)
Stachelhaus code match:: 70% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
LexA variant 2	Repressor of DNA damage response
MogR	Repressor of flagellar motility genes

NZ_NVOB01000006.1 - Region 1 - NRPS

Download region GenBank file

Download region SVG

Location: 1 - 29,324 nt. (total: 29,324 nt) Show pHMM detection rules used

Region on contig edge.

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

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

CON62_RS06605: Antibiotic biosynthesis monooxygenase

smcogs: SMCOG1258: Antibiotic biosynthesis monooxygenase

Transferases: PPTase

CON62_RS06545: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

Hydrolases: hydrolase protease

CON62_RS06525: isochorismatase

smcogs: SMCOG1027: isochorismatase

CON62_RS06570: alkaline serine protease, subtilase family

smcogs: SMCOG1075: alkaline serine protease, subtilase family

Ligases: ligase synthase

CON62_RS06520: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CON62_RS06530: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

CON62_RS06610: Pseudouridine synthase

smcogs: SMCOG1154: Pseudouridine synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.71	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001641.4	0.67	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002075.3	0.74	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens
BGC0001132.4	0.71	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001833.4	0.70	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.70	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0001128.4	0.70	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3	0.69	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4	0.69	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0000342.4	0.69	NRPS	enniatin	Fusarium equiseti
BGC0002135.2	0.68	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001641.4	0.67	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.53 out of 26.06

Confidence: strong

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.56 out of 29.38

Confidence: medium

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 26.57 out of 32.74

Confidence: medium

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.12 out of 23.79

Confidence: medium

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 24.52 out of 30.25

Confidence: medium

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.21 out of 30.25

Confidence: medium

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 22.30 out of 26.33

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19

Confidence: medium

Additional weak hits (4):

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 15.72 out of 18.46

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.53 out of 30.25

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 29.77 out of 39.62

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.42 out of 33.14

Confidence: weak

Module view

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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 - 29324:

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

Polymer prediction:: (Gly - Thr)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CON62_RS06520: diOH-Bz

Search NORINE for peptide: strict or relaxed

AMP-binding (36..301): diOH-Bz

nrpys: diOH-Bz

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: dhb (diOH-Bz)

Stachelhaus prediction details:

Stachelhaus sequence:: SVSLYPMSSPGGALQVGGAQQVFGMAEGLVNYTR
Nearest Stachelhaus code(s):: diOH-Bz PMPAQGVVNK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

CON62_RS06530: Gly - Thr

Search NORINE for peptide: strict or relaxed

AMP-binding (464..864): 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:: FAMTFDISALELQALVGGETNLYGPTETTIWSTF
Nearest Stachelhaus code(s):: Gly DILQLGLIWK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1524..1937): 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:: LATHFDFSVWEGNQVFGGEINMYGITETTVHVSY
Nearest Stachelhaus code(s):: Thr DFWNVGMVHK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
ColR	Phenol-responsive regulator
FuR variant 1	Ferric Uptake Regulator
FuR variant 2	Ferric Uptake Regulator
IolR	Regulator of the inositol catabolism
MogR	Repressor of flagellar motility genes
ZuR variant 1	Zinc-responsive repressor

NZ_NVOB01000008.1 - Region 1 - terpene-precursor

Download region GenBank file

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Location: 460,634 - 481,524 nt. (total: 20,891 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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

Transferases: carboxylase

CON62_RS09895: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Ligases: synthase synthetase

CON62_RS09860: 1-deoxy-D-xylulose-5-phosphate synthase

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

CON62_RS09865: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002397.2	0.47	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0002398.2	0.39	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0002219.2	0.39	terpene	(-)-(R)-nephthenol	Stereum hirsutum FP-91666 SS1
BGC0000665.5	0.38	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002284.3	0.38	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000639.3	0.38	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000642.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC413

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002397.2	0.47	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0002398.2	0.39	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0002219.2	0.39	terpene	(-)-(R)-nephthenol	Stereum hirsutum FP-91666 SS1
BGC0000665.5	0.38	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002284.3	0.38	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0000639.3	0.38	terpene	carotenoid	Enterobacteriaceae bacterium DC260
BGC0000642.3	0.37	terpene	carotenoid	Enterobacteriaceae bacterium DC413

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 precursor		FPP	C15	acyclic	PP

Genes with terpene domains:

CON62_RS09865: PT_FPPS_like

Domain 1 (32 - 295): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:: IPP, DMAPP → FPP

Transcription Factor Binding Sites

Binding sites found:

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.49 out of 27.78

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.53 out of 25.88

Confidence: medium

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.28 out of 26.33

Confidence: medium

Additional weak hits (4):

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.54 out of 25.75

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 25.04 out of 35.63

Confidence: weak

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 20.93 out of 29.72

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 25.40 out of 33.14

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
DMAPP	Dimethylallyl diphosphate
FPP	Farnesyl diphosphate
IPP	Isopentenyl diphosphate
PP	Diphosphate

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
PsrA	Oleic acid responsive regulator