GCF_002844375.1 - 9 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

NZ_CP024199.1 (Thalassospira marina)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	terpene	490,413	511,492
Region 1.2	terpene-precursor	1,394,822	1,415,661
Region 1.3	terpene	2,014,067	2,034,912
Region 1.4	ectoine	2,096,617	2,107,018	Medium	ectoine	other:other
Region 1.5	RiPP-like	2,771,783	2,782,730
Region 1.6	arylpolyene	2,923,800	2,967,780	Low	APE Vf	other:other

NZ_CP024200.1 (Thalassospira marina)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 2.1	azole-containing-RiPP,lanthipeptide-class-ii	456,997	486,109
Region 2.2	NRPS	651,214	694,207
Region 2.3	hydrogen-cyanide,NI-siderophore	796,768	846,258	Low	schizokinen	NRPS:Type IV

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	terpene	490,413	511,492
Region 1.2	terpene-precursor	1,394,822	1,415,661
Region 1.3	terpene	2,014,067	2,034,912
Region 1.4	ectoine	2,096,617	2,107,018	Medium	ectoine	other:other
Region 1.5	RiPP-like	2,771,783	2,782,730
Region 1.6	arylpolyene	2,923,800	2,967,780	Low	APE Vf	other:other
Region 2.1	azole-containing-RiPP,lanthipeptide-class-ii	456,997	486,109
Region 2.2	NRPS	651,214	694,207
Region 2.3	hydrogen-cyanide,NI-siderophore	796,768	846,258	Low	schizokinen	NRPS:Type IV

Compact view

NZ_CP024199.1 - Region 1 - terpene

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Location: 490,413 - 511,492 nt. (total: 21,080 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

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Hydrolases: dehalogenase

CSC3H3_RS02210: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.42	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000558.5	0.42	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0000616.4	0.40	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0001862.4	0.40	ribosomal	pallidocin	Aeribacillus pallidus
BGC0001863.4	0.38	ribosomal, terpene	bacillicn CER074	Bacillus mycoides
BGC0001887.3	0.38	ribosomal	huazacin	Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0001210.5	0.36	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000626.3	0.36	ribosomal	thuricin	Bacillus thuringiensis
BGC0000539.5	0.36	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0002635.2	0.35	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.42	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000558.5	0.42	ribosomal	sublancin 168	Bacillus subtilis subsp. subtilis str. 168
BGC0000616.4	0.40	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0001862.4	0.40	ribosomal	pallidocin	Aeribacillus pallidus
BGC0001863.4	0.38	ribosomal, terpene	bacillicn CER074	Bacillus mycoides
BGC0001887.3	0.38	ribosomal	huazacin	Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0001210.5	0.36	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000626.3	0.36	ribosomal	thuricin	Bacillus thuringiensis
BGC0000539.5	0.36	ribosomal	nukacin ISK-1	Staphylococcus warneri
BGC0002635.2	0.35	ribosomal	daspyromycin A, daspyromycin B	Actinokineospora diospyrosa

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
triterpene		PSPP	C30	acyclic	PP
triterpene	C30 carotenoid	diapophytoene	C30	acyclic	none
triterpene		squalene	C30	acyclic	none
tetraterpene	C40 carotenoid	phytoene	C40	acyclic	none
triterpene		hydroxysqualene	C30	acyclic	OH

Genes with terpene domains:

CSC3H3_RS02195: PT_phytoene_like

Domain 1 (16 - 316): Prenyltransferase; Phytoene synthase like

Subtype: unknown

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

Transcription Factor Binding Sites

Binding sites found:

ANR

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

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.87 out of 27.78

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 21.07 out of 25.31

Confidence: medium

VqsM

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

Confidence: medium

NtrC

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

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.21 out of 27.78

Confidence: medium

Additional weak hits (7):

ANR

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

Confidence: weak

BldD

Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.23 out of 23.43

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.78 out of 30.22

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.17 out of 24.78

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.10 out of 29.25

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.45 out of 20.01

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
PP	Diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
CatR	H2O2-responsive repressor
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
NtrC	Nitrogen regulatory protein C
VqsM	Regulator of quorum-sensing signalling systems

NZ_CP024199.1 - Region 2 - terpene-precursor

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Location: 1,394,822 - 1,415,661 nt. (total: 20,840 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

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

Tailoring functions

Oxidoreductases: dehydrogenase

CSC3H3_RS06375: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

CSC3H3_RS06380: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

CSC3H3_RS06385: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Ligases: synthase synthetase

CSC3H3_RS06355: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

CSC3H3_RS06365: 1-deoxy-D-xylulose-5-phosphate synthase

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

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
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
BGC0000888.5	0.45	other (other)	bacilysin	Bacillus sp. CS93
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0001605.3	0.43	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0001594.3	0.41	other (other)	fischerindole L	Fischerella muscicola UTEX 1829
BGC0000678.5	0.41	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000666.5	0.41	terpene	xiamycin A	Streptomyces sp. SCSIO 02999
BGC0001184.4	0.41	other (other)	bacilysin	Bacillus velezensis FZB42

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
BGC0000888.5	0.45	other (other)	bacilysin	Bacillus sp. CS93
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0001605.3	0.43	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0001594.3	0.41	other (other)	fischerindole L	Fischerella muscicola UTEX 1829
BGC0000678.5	0.41	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000666.5	0.41	terpene	xiamycin A	Streptomyces sp. SCSIO 02999
BGC0001184.4	0.41	other (other)	bacilysin	Bacillus velezensis FZB42

Similar known clusters from MIBiG 4.0

No significant matches found.

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:

CSC3H3_RS06355: PT_FPPS_like

Domain 1 (17 - 278): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:: DMAPP, IPP → FPP

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.55 out of 18.46

Confidence: strong

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.42 out of 29.38

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.74 out of 29.38

Confidence: medium

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 28.21 out of 32.74

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.00 out of 28.19

Confidence: medium

Additional weak hits (11):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.35 out of 26.33

Confidence: weak

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.08 out of 26.85

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.16 out of 26.06

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.95 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.69 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.82 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.78 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.32 out of 29.38

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.80 out of 28.19

Confidence: weak

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.72 out of 29.65

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 24.96 out of 30.98

Confidence: weak

Terpene

TFBS Finder

Glossary

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

TFBS definitions

Regulator	Description
FuR variant 1	Ferric Uptake Regulator
FuR variant 2	Ferric Uptake Regulator
RpoN	Regulator of nitrogen assimilation and virulence
ZuR variant 1	Zinc-responsive repressor

NZ_CP024199.1 - Region 3 - terpene

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Location: 2,014,067 - 2,034,912 nt. (total: 20,846 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

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: oxidoreductase

CSC3H3_RS09275: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001687.3	0.33	other (other)	N-tetradecanoyl tyrosine	uncultured bacterium CSL12
BGC0000760.5	0.29	saccharide	emulsan	Acinetobacter venetianus RAG-1 = CIP 110063
BGC0000698.5	0.29	saccharide	hygromycin A	Streptomyces hygroscopicus
BGC0001637.3	0.28	NRPS	kleboxymycin	Klebsiella oxytoca
BGC0000448.5	0.28	NRPS	tomaymycin	Streptomyces achromogenes
BGC0001652.5	0.26	NRPS	limazepine C, limazepine D, limazepine E, limazepine F, limazepine A	Streptomyces sp. ICBB 8177
BGC0000415.5	0.26	NRPS	quinomycin	Streptomyces griseovariabilis subsp. bandungensis
BGC0001228.5	0.26	NRPS	retimycin A	Salinispora arenicola CNT005
BGC0002129.4	0.25	PKS	metathramycin, premetathramycin	uncultured bacterium
BGC0000339.5	0.25	NRPS	echinomycin	Streptomyces lasaliensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001687.3	0.33	other (other)	N-tetradecanoyl tyrosine	uncultured bacterium CSL12
BGC0000760.5	0.29	saccharide	emulsan	Acinetobacter venetianus RAG-1 = CIP 110063
BGC0000698.5	0.29	saccharide	hygromycin A	Streptomyces hygroscopicus
BGC0001637.3	0.28	NRPS	kleboxymycin	Klebsiella oxytoca
BGC0000448.5	0.28	NRPS	tomaymycin	Streptomyces achromogenes
BGC0001652.5	0.26	NRPS	limazepine C, limazepine D, limazepine E, limazepine F, limazepine A	Streptomyces sp. ICBB 8177
BGC0000415.5	0.26	NRPS	quinomycin	Streptomyces griseovariabilis subsp. bandungensis
BGC0001228.5	0.26	NRPS	retimycin A	Salinispora arenicola CNT005
BGC0002129.4	0.25	PKS	metathramycin, premetathramycin	uncultured bacterium
BGC0000339.5	0.25	NRPS	echinomycin	Streptomyces lasaliensis

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

Class	Subclass	Product name	Chain length	Initial cyclisations	Functional groups
triterpene		PSPP	C30	acyclic	PP
triterpene	C30 carotenoid	diapophytoene	C30	acyclic	none
triterpene		squalene	C30	acyclic	none
tetraterpene	C40 carotenoid	phytoene	C40	acyclic	none
triterpene		hydroxysqualene	C30	acyclic	OH

Genes with terpene domains:

CSC3H3_RS09245: PT_phytoene_like

Domain 1 (8 - 276): Prenyltransferase; Phytoene synthase like

Subtype: unknown

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

Transcription Factor Binding Sites

Binding sites found:

CRP

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

Confidence: strong

Additional weak hits (2):

ColR

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

Confidence: weak

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 24.44 out of 36.53

Confidence: weak

Terpene

TFBS Finder

Glossary

Acronym	Full name
FPP	Farnesyl diphosphate
GGPP	Geranylgeranyl diphosphate
PP	Diphosphate
PSPP	Presqualene diphosphate

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein

NZ_CP024199.1 - Region 4 - ectoine

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Location: 2,096,617 - 2,107,018 nt. (total: 10,402 nt) Show pHMM detection rules used

ectoine: ectoine_synt

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

Transferases: aminotransferase

CSC3H3_RS09575: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Hydrolases: phosphatase

CSC3H3_RS09600: inositol monophosphatase

smcogs: SMCOG1207: inositol monophosphatase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000856.3	0.80	other (other)	ectoine	Methylophaga thalassica
BGC0000859.3	0.80	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0000857.3	0.80	other (other)	ectoine	Methylophaga alcalica
BGC0000860.3	0.79	other (other)	ectoine	Methylarcula marina
BGC0000855.3	0.74	other (other)	ectoine	Methylomicrobium kenyense
BGC0000852.5	0.71	other (other)	ectoine	Sporosarcina pasteurii
BGC0002052.3	0.68	other (ectoine)	ectoine	Streptomyces sp.
BGC0000853.3	0.68	other (other)	ectoine	Streptomyces anulatus
BGC0000854.3	0.67	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z
BGC0000858.3	0.66	other (other)	ectoine	Methylobacter marinus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000856.3	0.80	other (other)	ectoine	Methylophaga thalassica
BGC0000859.3	0.80	other (other)	ectoine	Methylomicrobium alcaliphilum
BGC0000857.3	0.80	other (other)	ectoine	Methylophaga alcalica
BGC0000860.3	0.79	other (other)	ectoine	Methylarcula marina
BGC0000855.3	0.74	other (other)	ectoine	Methylomicrobium kenyense
BGC0000852.5	0.71	other (other)	ectoine	Sporosarcina pasteurii
BGC0002052.3	0.68	other (ectoine)	ectoine	Streptomyces sp.
BGC0000853.3	0.68	other (other)	ectoine	Streptomyces anulatus
BGC0000854.3	0.67	other (other)	ectoine	Methylomicrobium alcaliphilum 20Z
BGC0000858.3	0.66	other (other)	ectoine	Methylobacter marinus

Similar known clusters from MIBiG 4.0

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: 21.64 out of 27.55

Confidence: medium

Additional weak hits (4):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.79 out of 27.78

Confidence: weak

ColR

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

Confidence: weak

HypR

Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.86 out of 27.18

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
GnfM	Regulator of nitrogen-fixation genes

NZ_CP024199.1 - Region 5 - RiPP-like

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Location: 2,771,783 - 2,782,730 nt. (total: 10,948 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

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: oxidoreductase

CSC3H3_RS12665: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000372.5	0.27	NRPS	hexadehydroastechrome, terezine-D, astechrome	Aspergillus fumigatus Af293
BGC0000207.5	0.26	PKS	chartreusin	Streptomyces chartreusis
BGC0002408.3	0.25	NRPS	malleobactin X	Collimonas pratensis
BGC0001285.5	0.25	other (fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0001617.3	0.25	terpene	hirsutene	Stereum hirsutum FP-91666 SS1
BGC0000495.5	0.24	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0001578.3	0.23	PKS	duclauxin	Talaromyces stipitatus ATCC 10500
BGC0000935.5	0.23	PKS, other (aminocoumarin)	esmeraldin	Streptomyces antibioticus
BGC0002244.3	0.23	PKS	3'-methoxy-1,2-dehydropenicillide, pestalotiollide B, pestalotiollide C, 1,2-dehydropenicillide, 3-methoxy-1,2-dehydropenicillide, 1,2-epoxy-3,4-didehydropenicillide	Neopestalotiopsis clavispora
BGC0000723.5	0.22	other (cyclitol), saccharide	validamycin A	Streptomyces hygroscopicus subsp. limoneus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000372.5	0.27	NRPS	hexadehydroastechrome, terezine-D, astechrome	Aspergillus fumigatus Af293
BGC0000207.5	0.26	PKS	chartreusin	Streptomyces chartreusis
BGC0002408.3	0.25	NRPS	malleobactin X	Collimonas pratensis
BGC0001285.5	0.25	other (fatty acid)	pseudopyronine A, pseudopyronine B	Pseudomonas putida
BGC0001617.3	0.25	terpene	hirsutene	Stereum hirsutum FP-91666 SS1
BGC0000495.5	0.24	ribosomal	actagardine	Actinoplanes garbadinensis
BGC0001578.3	0.23	PKS	duclauxin	Talaromyces stipitatus ATCC 10500
BGC0000935.5	0.23	PKS, other (aminocoumarin)	esmeraldin	Streptomyces antibioticus
BGC0002244.3	0.23	PKS	3'-methoxy-1,2-dehydropenicillide, pestalotiollide B, pestalotiollide C, 1,2-dehydropenicillide, 3-methoxy-1,2-dehydropenicillide, 1,2-epoxy-3,4-didehydropenicillide	Neopestalotiopsis clavispora
BGC0000723.5	0.22	other (cyclitol), saccharide	validamycin A	Streptomyces hygroscopicus subsp. limoneus

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 18.25 out of 18.46

Confidence: strong

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.93 out of 26.33

Confidence: medium

Additional weak hits (4):

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.51 out of 27.78

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.87 out of 27.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.81 out of 26.06

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.96 out of 28.19

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
RpoN	Regulator of nitrogen assimilation and virulence

NZ_CP024199.1 - Region 6 - arylpolyene

Download region GenBank file

Download region SVG

Location: 2,923,800 - 2,967,780 nt. (total: 43,981 nt) Show pHMM detection rules used

arylpolyene: (APE_KS1 or APE_KS2)

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 domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

CSC3H3_RS13340: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

CSC3H3_RS13435: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acyltransferase halogenase

CSC3H3_RS13365: acyltransferase

smcogs: SMCOG1141: acyltransferase

CSC3H3_RS13415: conventional flavin-dependent halogenase

halogenases: conventional flavin-dependent halogenase
smcogs: SMCOG1119: halogenase

Ligases: ligase synthase

CSC3H3_RS13385: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CSC3H3_RS13390: polyprenol-monophosphomannose synthase ppm1

smcogs: SMCOG1123: polyprenol-monophosphomannose synthase ppm1

CSC3H3_RS13425: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

CSC3H3_RS13440: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002341.2	0.74	other (other)	3,5-dibromo-p-anisic acid	Planctomycetales bacterium 10988
BGC0002008.3	0.65	other (other)	aryl polyenes	Xenorhabdus doucetiae
BGC0000836.5	0.58	other (other)	APE Ec	Escherichia coli CFT073
BGC0001160.5	0.58	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.57	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001940.3	0.49	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax
BGC0000837.4	0.48	other (other)	APE Vf	Aliivibrio fischeri ES114
BGC0001987.2	0.47	PKS	koreenceine A, koreenceine B, koreenceine C, koreenceine D	Pseudomonas koreensis
BGC0002711.2	0.47	PKS	nostovalerolactone, 9-dehydronostovalerolactone	Nostoc punctiforme PCC 73102
BGC0000231.5	0.47	PKS	griseusin A, griseusin B	Streptomyces griseus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002341.2	0.74	other (other)	3,5-dibromo-p-anisic acid	Planctomycetales bacterium 10988
BGC0002008.3	0.65	other (other)	aryl polyenes	Xenorhabdus doucetiae
BGC0000836.5	0.58	other (other)	APE Ec	Escherichia coli CFT073
BGC0001160.5	0.58	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.57	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001940.3	0.49	PKS	pyxidicycline A, pyxidicycline B	Pyxidicoccus fallax
BGC0000837.4	0.48	other (other)	APE Vf	Aliivibrio fischeri ES114
BGC0001987.2	0.47	PKS	koreenceine A, koreenceine B, koreenceine C, koreenceine D	Pseudomonas koreensis
BGC0002711.2	0.47	PKS	nostovalerolactone, 9-dehydronostovalerolactone	Nostoc punctiforme PCC 73102
BGC0000231.5	0.47	PKS	griseusin A, griseusin B	Streptomyces griseus

Similar known clusters from MIBiG 4.0

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: 21.52 out of 27.55

Confidence: medium

Additional weak hits (6):

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 18.60 out of 28.14

Confidence: weak

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.10 out of 39.62

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.28 out of 28.14

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.59 out of 29.25

Confidence: weak

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.20 out of 26.12

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 19.10 out of 27.78

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS substrates

TFBS Finder

NRPS/PKS substrate predictions

CSC3H3_RS13385: X

AMP-binding (42..294): X

nrpys: Gly, Ala, Val, Leu, Ile, Abu, Ival

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: LRVS-----QAWIAFCSGGTEILGSTETGGIAWR
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
GnfM	Regulator of nitrogen-fixation genes

NZ_CP024200.1 - Region 1 - azole-containing-RiPP,lanthipeptide-class-ii

Download region GenBank file

Download region SVG

Location: 456,997 - 486,109 nt. (total: 29,113 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)
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

Azole RiPPs

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: oxygenase reductase

CSC3H3_RS22295: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

CSC3H3_RS22330: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

Transferases: sulfotransferase

CSC3H3_RS22275: glutathione S-transferase

smcogs: SMCOG1193: glutathione S-transferase

Hydrolases: hydrolase

CSC3H3_RS22340: amidohydrolase

smcogs: SMCOG1244: amidohydrolase

Lyases: cyclase decarboxylase

CSC3H3_RS22250: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

CSC3H3_RS22310: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002551.2	0.38	other (other), ribosomal, terpene	muscoride A, muscoride B	Nostoc sp. UHCC-0398
BGC0002485.2	0.38	other (other), ribosomal	muscoride A, muscoride B	Desmonostoc sp. PCC 7906
BGC0000483.5	0.38	ribosomal	aeruginosamide B, aeruginosamide C	Microcystis aeruginosa PCC 9432
BGC0000565.5	0.37	ribosomal	goadsporin	Streptomyces sp. TP-A0584
BGC0000475.5	0.32	ribosomal	patellamide A, patellamide C	Prochloron didemni
BGC0000480.5	0.32	ribosomal	tenuecyclamide A, tenuecyclamide C	Nostoc spongiaeforme var. tenue str. Carmeli
BGC0002311.3	0.32	ribosomal	cutimycin	Cutibacterium acnes KPA171202
BGC0000471.4	0.31	ribosomal	viridisamide A	Oscillatoria nigro-viridis PCC 7112
BGC0000477.3	0.31	ribosomal	patellin 2, patellin 3	uncultured Prochloron sp. 06037A
BGC0002584.2	0.31	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002551.2	0.51	other (other), ribosomal, terpene	muscoride A, muscoride B	Nostoc sp. UHCC-0398
BGC0002485.2	0.51	other (other), ribosomal	muscoride A, muscoride B	Desmonostoc sp. PCC 7906
BGC0000483.5	0.51	ribosomal	aeruginosamide B, aeruginosamide C	Microcystis aeruginosa PCC 9432
BGC0000565.5	0.50	ribosomal	goadsporin	Streptomyces sp. TP-A0584
BGC0000475.5	0.47	ribosomal	patellamide A, patellamide C	Prochloron didemni
BGC0000480.5	0.47	ribosomal	tenuecyclamide A, tenuecyclamide C	Nostoc spongiaeforme var. tenue str. Carmeli
BGC0002584.2	0.46	ribosomal	azolemycin B, azolemycin A, azolemycin D, azolemycin C	Streptomyces sp. FXJ1.264
BGC0002311.3	0.46	ribosomal	cutimycin	Cutibacterium acnes KPA171202
BGC0000471.4	0.46	ribosomal	viridisamide A	Oscillatoria nigro-viridis PCC 7112
BGC0000477.3	0.46	ribosomal	patellin 2, patellin 3	uncultured Prochloron sp. 06037A

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for CSC3H3_RS22310

allorf_465136_465309

Leader:

MVAMQRYPSKISNGLGCRNRRPFRPPVPTDQTMPYS

Core:

NTRPAMRWRVFCCGIWRTACG

Core with dehydrations:

NDhbRPAMRWRVFCysCysGIWRDhbACysG

antiSMASH-DB 4.0 matches for allorf_465136_465309

100.0%

NZ_CP024200.1:

Lanthipeptides: allorf_465136_465309_lanthipeptide

1

NTRPAMRWRVFCCGIWRTACG

21

NTRPAMRWRVFCCGIWRTACG

1

NTRPAMRWRVFCCGIWRTACG

21

32.1%

NZ_CP026498.1:

Lanthipeptides: allorf_09403111_09403221_lanthipeptide

2

TRPAMRWRVFCCGIWRTA

19

TRPA+R CCG W +

2

TRPAVR----CCGRWESG

15

16.7%

NC_002935.2and 10 others:

NC_016787.1 Lanthipeptides: allorf_0696604_0696828_lanthipeptideNC_016788.1 Lanthipeptides: allorf_0704780_0705004_lanthipeptideNC_016790.1 Lanthipeptides: allorf_0673912_0674136_lanthipeptideNC_016802.1 Lanthipeptides: allorf_0720358_0720582_lanthipeptideNZ_CP038504.1 Lanthipeptides: allorf_0568170_0568394_lanthipeptideNZ_CP040519.1 Lanthipeptides: allorf_0699626_0699850_lanthipeptideNZ_CP040557.1 Lanthipeptides: allorf_0664205_0664429_lanthipeptideNZ_MIOA01000032.1 Lanthipeptides: allorf_03743_03967_lanthipeptideNZ_MIOB01000009.1 Lanthipeptides: allorf_03741_03965_lanthipeptideNZ_MIYS01000053.1 Lanthipeptides: allorf_04053_04277_lanthipeptide

Lanthipeptides: allorf_0736323_0736547_lanthipeptide

8

WRVFCCGIWRTACG

21

W+ F C +W TA G

25

WQTFRCCVWITAPG

38

with 2 more sequence matches

16.1%

NZ_FUXI01000002.1:

Lanthipeptides: B5D30_RS01205_lanthipeptide

13

CGIWRTACG

21

C ++ TACG

11

CAVFATACG

19

10.2%

NZ_SOCO01000001.1:

Lanthipeptides: allorf_1178421_1178636_lanthipeptide

12

CCGIWRT

18

CCG WR+

28

CCGDWRS

34

allorf_472692_472802

Leader:

MAEFQNACAHTQRVGDALKALPGP

Core:

CVDREKGNKTLM

Core with dehydrations:

CysVDREKGNKDhbLM

antiSMASH-DB 4.0 matches for allorf_472692_472802

100.0%

NZ_CP024200.1:

Lanthipeptides: allorf_472692_472802_lanthipeptide

1

CVDREKGNKTLM

12

CVDREKGNKTLM

1

CVDREKGNKTLM

12

allorf_472810_472938

Leader:

MGSFFPRLGDPFEELPHVLGG

Core:

NMLHFLCSVLRLGDMILNCSY

Core with dehydrations:

NMLHFLCysDhaVLRLGDMILNCysDhaY

antiSMASH-DB 4.0 matches for allorf_472810_472938

100.0%

NZ_CP024200.1:

Lanthipeptides: allorf_472810_472938_lanthipeptide

1

NMLHFLCSVLRLGDMILNCSY

21

NMLHFLCSVLRLGDMILNCSY

1

NMLHFLCSVLRLGDMILNCSY

21

12.0%

NZ_CP098485.1:

Lanthipeptides: allorf_6386875_6387051_lanthipeptide

2

MLHFLCSVLR

11

++HFLC+ LR

26

IIHFLCAALR

35

8.5%

NZ_FOGI01000013.1:

Lanthipeptides: BMY07_RS27410_lanthipeptide

1

NMLHFLCSVLRLGDMILNCSY

21

+ HF V ++ C Y

18

RLTHFEARVRATAQTVVKCDY

38

allorf_478430_478630

Leader:

MDWEMCSVPSERGKAGSVRAGKVSWDVRPNRSGHRCHPCARRFLTAGARAGG

Core:

CHILICRLQSFASP

Core with dehydrations:

CysHILICysRLQDhaFADhaP

antiSMASH-DB 4.0 matches for allorf_478430_478630

100.0%

NZ_CP024200.1:

Lanthipeptides: allorf_478430_478630_lanthipeptide

1

CHILICRLQSFASP

14

CHILICRLQSFASP

1

CHILICRLQSFASP

14

31.8%

NZ_CP106798.1:

Lanthipeptides: allorf_8206062_8206163_lanthipeptide

4

LICRLQSFASP

14

L CRL + ASP

2

LACRLPAPASP

12

14.3%

NZ_LISX01000002.1and 3 others:

NZ_LISX01000002.1 Lanthipeptides: allorf_740969_741205_lanthipeptideNZ_LISX01000002.1 Lanthipeptides: allorf_740969_741205_lanthipeptideNZ_LISX01000002.1 Lanthipeptides: allorf_740969_741205_lanthipeptide

Lanthipeptides: allorf_740969_741205_lanthipeptide

3

ILICRLQSFA

12

I+ CR ++FA

8

IIFCRFRTFA

17

allorf_478534_478758

Leader:

MPPLRPAVFNGGGEGRRMPYIDLPIAVICVSLTGG

Core:

HMPCAEYPGGFAPWCRSDSFKQAKPWIAQMNAFGCNLFR

Core with dehydrations:

HMPCysAEYPGGFAPWCysRDhaDDhaFKQAKPWIAQMNAFGCysNLFR

antiSMASH-DB 4.0 matches for allorf_478534_478758

100.0%

NZ_CP024200.1:

Lanthipeptides: allorf_478534_478758_lanthipeptide

1

HMPCAEYPGGFAPWCRSDSFKQAKPWIAQMNAFGCNLFR

39

HMPCAEYPGGFAPWCRSDSFKQAKPWIAQMNAFGCNLFR

1

HMPCAEYPGGFAPWCRSDSFKQAKPWIAQMNAFGCNLFR

39

17.9%

NZ_CP071463.1:

Lanthipeptides: allorf_0726528_0726683_lanthipeptide

17

SDSFKQAKPWIAQMNAFGCN

36

SDS PWI+ + C+

10

SDSSASLSPWISTVGHRRCH

29

16.3%

NZ_FONG01000023.1and 4 others:

NZ_FONG01000023.1 Lanthipeptides: allorf_100558_100722_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_100558_100722_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_100558_100722_lanthipeptideNZ_FONG01000023.1 Lanthipeptides: allorf_100558_100722_lanthipeptide

Lanthipeptides: allorf_100558_100722_lanthipeptide

2

MPCAEYPGGFAPWCR

16

PC ++PGG P R

28

TPCGQHPGGCGPHGR

42

with 2 more sequence matches

14.0%

NZ_CP050504.1and 3 others:

NZ_CP050504.1 Lanthipeptides: HB370_RS40320_lanthipeptideNZ_CP050504.1 Lanthipeptides: HB370_RS40320_lanthipeptideNZ_CP050504.1 Lanthipeptides: HB370_RS40320_lanthipeptide

Lanthipeptides: HB370_RS40320_lanthipeptide

23

AKPWIAQMNAFGCNL

37

A PW+ F C+L

27

ADPWVTATTRFACDL

41

12.8%

NZ_CP010407.1and 3 others:

NZ_CP010407.1 Lanthipeptides: SVTN_RS37505_lanthipeptideNZ_CP010407.1 Lanthipeptides: SVTN_RS37505_lanthipeptideNZ_CP010407.1 Lanthipeptides: SVTN_RS37505_lanthipeptide

Lanthipeptides: SVTN_RS37505_lanthipeptide

23

AKPWIAQMNAFGCNL

37

+ PW+ F C+L

16

SDPWVTATTRFACDL

30

allorf_485224_485328

Leader:

MADDCNCLPICGYAMIDESSGA

Core:

CALEKPNRVRET

Core with dehydrations:

CysALEKPNRVREDhb

antiSMASH-DB 4.0 matches for allorf_485224_485328

100.0%

NZ_CP024200.1:

Lanthipeptides: allorf_485224_485328_lanthipeptide

1

CALEKPNRVRET

12

CALEKPNRVRET

1

CALEKPNRVRET

12

11.8%

NZ_JACHOW010000029.1:

Lanthipeptides: allorf_00086_00274_lanthipeptide

2

ALEKPNRVRE

11

A+E PNR R+

33

AVEAPNRTRQ

42

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.55 out of 18.46

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.22 out of 18.46

Confidence: strong

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.43 out of 26.85

Confidence: medium

MexT

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

Confidence: strong

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 26.04 out of 26.85

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.75 out of 18.57

Confidence: strong

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.36 out of 20.97

Confidence: medium

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 22.58 out of 27.55

Confidence: medium

Additional weak hits (4):

LuxO

Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.40 out of 26.12

Confidence: weak

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.06 out of 26.33

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.88 out of 28.14

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.15 out of 28.19

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

Lanthipeptides

RREFinder

TFBS Finder

Azole RiPPs

Core peptide predictions

allorf_465136_465309 - Class II: Cleavage pHMM score: -4.80; RODEO score: 0; Monoisotopic mass: 2463.2 Da; Molecular weight: 2464.9 Da; Number of bridges: 2; Additional modifications: OH
allorf_472692_472802 - Class II: Cleavage pHMM score: -7.30; RODEO score: 0; Monoisotopic mass: 1390.7 Da; Molecular weight: 1391.6 Da; Number of bridges: 1; Additional modifications: OH
allorf_472810_472938 - Class II: Cleavage pHMM score: -0.50; RODEO score: 0; Monoisotopic mass: 2421.2 Da; Molecular weight: 2422.9 Da; Number of bridges: 2; Additional modifications: OH
allorf_478430_478630 - Class II: Cleavage pHMM score: -6.10; RODEO score: 0; Monoisotopic mass: 1566.8 Da; Molecular weight: 1567.9 Da; Number of bridges: 2; Additional modifications: OH
allorf_478534_478758 - Class II: Cleavage pHMM score: -5.90; RODEO score: 0; Monoisotopic mass: 4441.0 Da; Molecular weight: 4444.1 Da; Number of bridges: 2; Additional modifications: OH
allorf_485224_485328 - Class II: Cleavage pHMM score: -6.00; RODEO score: 0; Monoisotopic mass: 1412.7 Da; Molecular weight: 1413.6 Da; Number of bridges: 1; Additional modifications: OH

RRE predictions

: RRE type: Cyanobactin_D_RRE; Location: 6 - 81; Score: 64.2; RRE type: NHLP_CD_RRE; Location: 5 - 97; Score: 57.0; RRE type: Goadsporin_CD_RRE; Location: 7 - 98; Score: 40.1
: RRE type: Cyanobactin_D_RRE; Location: 6 - 81; Score: 64.2; RRE type: NHLP_CD_RRE; Location: 5 - 97; Score: 57.0; RRE type: Goadsporin_CD_RRE; Location: 7 - 98; Score: 40.1

TFBS definitions

Regulator	Description
CcpA	Catabolite control protein A
GnfM	Regulator of nitrogen-fixation genes
MexT	Global virulence regulator
RpoN	Regulator of nitrogen assimilation and virulence
RutR	Regulator of the pyrimidine and purine metabolism
ToxT	Regulator of MSHA biosynthesis

Core peptide predictions

No core peptides found.

NZ_CP024200.1 - Region 2 - NRPS

Download region GenBank file

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Location: 651,214 - 694,207 nt. (total: 42,994 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

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

CSC3H3_RS23190: cytochrome P450

smcogs: SMCOG1007: cytochrome P450

CSC3H3_RS23210: Dioxygenase TauD/TfdA

smcogs: SMCOG1046: Dioxygenase TauD/TfdA

CSC3H3_RS23250: 3-hydroxyisobutyrate dehydrogenase

smcogs: SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

CSC3H3_RS23270: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: PPTase

CSC3H3_RS23155: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

Hydrolases: esterase

CSC3H3_RS23195: thioesterase

smcogs: SMCOG1004: thioesterase

Isomerases: racemase

CSC3H3_RS23295: mandelate racemase/muconate lactonizing enzyme

smcogs: SMCOG1268: mandelate racemase/muconate lactonizing enzyme

Ligases: ligase

CSC3H3_RS23200: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

CSC3H3_RS23225: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001166.5	0.65	NRPS	HC-toxin	Alternaria jesenskae
BGC0001160.5	0.62	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002084.4	0.56	ribosomal	biarylitide YYH	Planomonospora sp. ID82291
BGC0002099.3	0.56	ribosomal	biarylitide YFH	Planomonospora sp. ID107089
BGC0000016.4	0.54	other (other)	amphotericin B	Streptomyces nodosus
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0002474.2	0.50	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0000343.5	0.49	NRPS	enterobactin	Pseudomonas sp. J465
BGC0001475.4	0.47	terpene	aspterric acid	Aspergillus terreus NIH2624

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001166.5	0.65	NRPS	HC-toxin	Alternaria jesenskae
BGC0001160.5	0.62	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.61	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002084.4	0.56	ribosomal	biarylitide YYH	Planomonospora sp. ID82291
BGC0002099.3	0.56	ribosomal	biarylitide YFH	Planomonospora sp. ID107089
BGC0000016.4	0.54	other (other)	amphotericin B	Streptomyces nodosus
BGC0002631.2	0.53	ribosomal	Myxarylin	Pyxidicoccus fallax
BGC0002474.2	0.50	NRPS	agrobactin	Agrobacterium tumefaciens
BGC0000343.5	0.49	NRPS	enterobactin	Pseudomonas sp. J465
BGC0001475.4	0.47	terpene	aspterric acid	Aspergillus terreus NIH2624

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.75 out of 18.57

Confidence: strong

ToxT

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

Confidence: strong

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.16 out of 27.78

Confidence: medium

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.28 out of 26.06

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.47 out of 28.19

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.23 out of 28.19

Confidence: medium

Additional weak hits (4):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.56 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 20.78 out of 30.25

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.68 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.24 out of 26.06

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 4, location 651213 - 694207:

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

Polymer prediction:: (Asp)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

CSC3H3_RS23200: fatty_acid

CAL_domain (48..492): fatty_acid

minowa: fatty_acid

Prediction, score:

fatty_acid: 4.1
AHBA: 3.9
NH2: 0.2
shikimic_acid: 0.0
Acetyl-CoA: -2.9

CSC3H3_RS23225: Asp

Search NORINE for peptide: strict or relaxed

AMP-binding (22..385): 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:: pro (Pro)
Single AA prediction:: pro (Pro)

Stachelhaus prediction details:

Stachelhaus sequence:: FWQTFDVMYRDLHVFFAGEYNLYGPSESTMAKFC
Nearest Stachelhaus code(s):: Asp DVRHFALMAK (79% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
MogR	Repressor of flagellar motility genes
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_CP024200.1 - Region 3 - NI-siderophore,hydrogen-cyanide

Download region GenBank file

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Location: 796,768 - 846,258 nt. (total: 49,491 nt) Show pHMM detection rules used

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

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: oxidoreductase reductase

CSC3H3_RS23795: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

CSC3H3_RS23800: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

CSC3H3_RS23810: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

CSC3H3_RS23840: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

Transferases: aminotransferase

CSC3H3_RS25070: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Lyases: decarboxylase

CSC3H3_RS25065: diaminopimelate decarboxylase

smcogs: SMCOG1264: diaminopimelate decarboxylase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002488.3	0.31	other (other)	bacillopaline	Paenibacillus mucilaginosus KNP414
BGC0000946.5	0.28	other (other)	vibrioferrin	Vibrio parahaemolyticus
BGC0002487.3	0.27	other (other)	staphylopine	Staphylococcus aureus subsp. aureus Mu50
BGC0002527.2	0.26	other (other)	vibrioferrin	Azotobacter vinelandii CA
BGC0002683.2	0.25	NRPS	schizokinen	Nostoc sp. PCC 7120 = FACHB-418
BGC0000486.4	0.24	ribosomal	butyrivibriocin AR10	Butyrivibrio fibrisolvens
BGC0002698.2	0.24	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0002656.2	0.24	PKS	oryzanaphthopyran A, oryzanaphthopyran B, oryzanaphthopyran C, oryzanthrone A, oryzanthrone B, chlororyzanthrone A, chlororyzanthrone B	Streptacidiphilus oryzae TH49
BGC0001289.5	0.24	ribosomal	penisin	Paenibacillus ehimensis
BGC0000947.5	0.23	other (other)	vibrioferrin	Vibrio alginolyticus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000946.5	0.62	other (other)	vibrioferrin	Vibrio parahaemolyticus
BGC0002527.2	0.59	other (other)	vibrioferrin	Azotobacter vinelandii CA
BGC0000947.5	0.57	other (other)	vibrioferrin	Vibrio alginolyticus
BGC0000943.5	0.56	other (other)	staphyloferrin B	Staphylococcus aureus subsp. aureus NCTC 8325
BGC0000939.5	0.56	other (other)	aerobactin	Grimontia hollisae
BGC0002471.3	0.55	other (other)	baumannoferrin A, baumannoferrin B	Acinetobacter baumannii AYE
BGC0001870.3	0.54	other (other)	putrebactin, avaroferrin	Xenorhabdus budapestensis
BGC0002073.3	0.54	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0001408.5	0.54	other (other)	xanthoferrin	Xanthomonas oryzae pv. oryzae KACC 10331
BGC0002345.2	0.54	other (other)	hydrogen cyanide	Pseudomonas fluorescens

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.37 out of 20.47

Confidence: strong

RpoN

Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.55 out of 18.46

Confidence: strong

ToxT

Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.48 out of 18.57

Confidence: strong

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.87 out of 27.55

Confidence: medium

AfsR

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

Confidence: medium

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.93 out of 26.06

Confidence: medium

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 26.76 out of 32.74

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.36 out of 20.97

Confidence: medium

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 29.03 out of 33.14

Confidence: medium

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 29.03 out of 33.14

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.00 out of 28.19

Confidence: medium

Additional weak hits (16):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.61 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.24 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.22 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.33 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 18.88 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.67 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.02 out of 28.14

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 19.76 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.87 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.99 out of 29.38

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.24 out of 29.38

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.21 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.60 out of 26.06

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.09 out of 30.25

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.55 out of 28.19

Confidence: weak

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.99 out of 20.01

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
CcpA	Catabolite control protein A
FuR variant 2	Ferric Uptake Regulator
GnfM	Regulator of nitrogen-fixation genes
MogR	Repressor of flagellar motility genes
RpoN	Regulator of nitrogen assimilation and virulence
ToxT	Regulator of MSHA biosynthesis
VqsM	Regulator of quorum-sensing signalling systems
ZuR variant 1	Zinc-responsive repressor
ZuR variant 2	Zinc-responsive repressor