GCF_015351105.1 - 11 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

NZ_JADKRR010000001.1 (Clavibacter sp. VKM Ac-2872)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	NRP-metallophore,NRPS	202,858	259,236	Medium	coelibactin	NRPS:Type I
Region 1.2	NAPAA	563,289	597,440	High	ε-Poly-L-lysine	NRPS:Type I
Region 1.3	hydrogen-cyanide	781,011	794,263
Region 1.4	T3PKS	1,621,634	1,662,854
Region 1.5	terpene-precursor,betalactone	2,022,173	2,057,866
Region 1.6	lanthipeptide-class-ii	2,130,613	2,153,771	High	michiganin A	ribosomal:RiPP:Lanthipeptide

NZ_JADKRR010000002.1 (Clavibacter sp. VKM Ac-2872)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 2.1	azole-containing-RiPP	232,150	254,551
Region 2.2	terpene	338,595	363,016	Low	carotenoid	terpene
Region 2.3	NRPS-like	466,791	503,716

NZ_JADKRR010000003.1 (Clavibacter sp. VKM Ac-2872)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	NI-siderophore	101,178	131,676	Low	FW0622	other:other

NZ_JADKRR010000005.1 (Clavibacter sp. VKM Ac-2872)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 5.1	RiPP-like	82,808	94,384

No secondary metabolite regions were found in these records:: NZ_JADKRR010000004.1 (Clavibacter sp. VKM Ac-2872); NZ_JADKRR010000006.1 (Clavibacter sp. VKM Ac-2872); NZ_JADKRR010000007.1 (Clavibacter sp. VKM Ac-2872); NZ_JADKRR010000008.1 (Clavibacter sp. VKM Ac-2872); NZ_JADKRR010000009.1 (Clavibacter sp. VKM Ac-2872)

Compact view

NZ_JADKRR010000001.1 - Region 1 - NRP-metallophore,NRPS

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Location: 202,858 - 259,236 nt. (total: 56,379 nt) Show pHMM detection rules used

NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

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: oxidoreductase reductase

ITJ40_RS01065: alkyl hydroperoxide reductase subunit

smcogs: SMCOG1176: alkyl hydroperoxide reductase subunit

ITJ40_RS01090: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

Transferases: PPTase glycosyltransferase kinase

ITJ40_RS01060: glycosyltransferase, MGT family

smcogs: SMCOG1062: glycosyltransferase, MGT family

ITJ40_RS01150: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

ITJ40_RS01250: PfkB domain protein

smcogs: SMCOG1276: PfkB domain protein

Hydrolases: esterase

ITJ40_RS01120: thioesterase

smcogs: SMCOG1004: thioesterase

Isomerases: isomerase

ITJ40_RS01155: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: ligase

ITJ40_RS01140: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

ITJ40_RS01145: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000412.5	0.63	NRPS	pyochelin	Pseudomonas aeruginosa PAO1
BGC0001833.4	0.61	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.60	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001128.4	0.60	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.59	NRPS	AbT1	Aureobasidium pullulans
BGC0001135.5	0.59	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.57	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001240.4	0.57	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001251.4	0.57	NRPS	epichloenin A	Epichloe festucae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000412.5	0.65	NRPS	pyochelin	Pseudomonas aeruginosa PAO1
BGC0001833.4	0.64	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001758.4	0.64	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001128.4	0.64	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4	0.63	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4	0.63	NRPS	AbT1	Aureobasidium pullulans
BGC0001135.5	0.63	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002135.2	0.62	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001240.4	0.62	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii
BGC0001251.4	0.62	NRPS	epichloenin A	Epichloe festucae

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

NtrC

Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 22.15 out of 29.72

Confidence: medium

VqsM

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

Confidence: medium

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.61 out of 26.85

Confidence: medium

CRP

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

Confidence: medium

Additional weak hits (17):

MntR

Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.03 out of 39.62

Confidence: weak

SypG

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

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 18.18 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.95 out of 32.74

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.65 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.96 out of 29.38

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.34 out of 32.74

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 15.78 out of 28.14

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.42 out of 29.38

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 16.44 out of 28.14

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 12.20 out of 26.06

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 11.99 out of 26.06

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 16.28 out of 29.38

Confidence: weak

HexR

Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 14.87 out of 31.73

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.52 out of 28.19

Confidence: weak

ZuR variant 1

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 15.60 out of 28.19

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 202857 - 259236:

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

Polymer prediction:: (Ser - Cys) + (Me-Cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

ITJ40_RS17330: Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (543..951): 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:: TDIAFDLSVFDGNSLLSGDVSLGGATEAAIWSVH
Nearest Stachelhaus code(s):: Cys DLFNLSLIWK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

ITJ40_RS01140: Ser - Cys

Search NORINE for peptide: strict or relaxed

AMP-binding (577..980): Ser

nrpys: Ser

SVM prediction details:

Predicted physicochemical class:: N/A
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:: TSLSFDLSVYDANTLLGGDLALGGMTEATIHSTV
Nearest Stachelhaus code(s):: Ser DLYNLGLIHK (76% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1636..2035): 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:: TAVSFDLSVFDGDTLVSGDVALGGATEAAIWSNA
Nearest Stachelhaus code(s):: Cys DLFNLSLIWK (76% 8Å match)
Stachelhaus code match:: 90% (moderate)

ITJ40_RS01145: X

AMP-binding (44..469): X

nrpys: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: NAALFTLACPGGALQVGGAQQVYGMAEGLVCTTA
Nearest Stachelhaus code(s):: Sal TLPAQGVICK (79% 8Å match); n-oh-nitropheBut TLPSQGVVCK (76% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
NtrC	Nitrogen regulatory protein C
RutR	Regulator of the pyrimidine and purine metabolism
VqsM	Regulator of quorum-sensing signalling systems

NZ_JADKRR010000001.1 - Region 2 - NAPAA

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Location: 563,289 - 597,440 nt. (total: 34,152 nt) Show pHMM detection rules used

NAPAA: (AMP-binding and TIGR02353)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

ITJ40_RS02820: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

ITJ40_RS02910: NADH:flavin oxidoreductase/NADH oxidase

smcogs: SMCOG1217: NADH:flavin oxidoreductase/NADH oxidase

Transferases: PPTase aminotransferase

ITJ40_RS02830: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1012: 4'-phosphopantetheinyl transferase

ITJ40_RS02865: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Lyases: dehydratase

ITJ40_RS02880: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: ligase

ITJ40_RS02840: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002174.2	0.77	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0002276.2	0.62	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001135.5	0.61	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.59	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001240.4	0.59	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002174.2	0.77	NRPS	ε-Poly-L-lysine	Epichloe festucae
BGC0002276.2	0.62	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0001135.5	0.61	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0000307.4	0.60	NRPS	AbT1	Aureobasidium pullulans
BGC0001166.5	0.60	NRPS	HC-toxin	Alternaria jesenskae
BGC0001251.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001250.4	0.60	NRPS	epichloenin A	Epichloe festucae
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.59	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001240.4	0.59	NRPS	serinocyclin A, serinocyclin B	Metarhizium robertsii

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 18.76 out of 25.31

Confidence: medium

Additional weak hits (4):

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.76 out of 21.84

Confidence: weak

ClgR

Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.06 out of 28.19

Confidence: weak

NrdR

Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.71 out of 27.18

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 2, location 563288 - 597440:

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

ITJ40_RS02840: X

AMP-binding (56..454): X

nrpys: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FAELFDASCEELSTIFGGEWNTYGPTEATVVACA
Nearest Stachelhaus code(s):: Lys DAEDIGTVVK (71% 8Å match); Gln or Tyr DAESVGTVVK (65% 8Å match)
Stachelhaus code match:: 90% (moderate)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
CatR	H2O2-responsive repressor

NZ_JADKRR010000001.1 - Region 3 - hydrogen-cyanide

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Location: 781,011 - 794,263 nt. (total: 13,253 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

ITJ40_RS03855: FAD dependent oxidoreductase

smcogs: SMCOG1103: FAD dependent oxidoreductase

ITJ40_RS03880: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

Hydrolases: peptidase

ITJ40_RS03845: methionine aminopeptidase

smcogs: SMCOG1172: methionine aminopeptidase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002345.2	0.53	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0000504.5	0.40	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000538.3	0.40	ribosomal	nisin Z	Lactococcus lactis
BGC0002382.3	0.39	ribosomal	grimoviridin	Grimontia marina
BGC0001289.5	0.39	ribosomal	penisin	Paenibacillus ehimensis
BGC0000500.5	0.39	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0002064.2	0.37	ribosomal	felipeptin A2, felipeptin A1	Amycolatopsis sp. YIM 10
BGC0000497.3	0.37	ribosomal	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0000541.5	0.37	ribosomal	paenicidin A	Paenibacillus polymyxa

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002345.2	0.53	other (other)	hydrogen cyanide	Pseudomonas fluorescens
BGC0001639.3	0.40	ribosomal	klebsidin	Klebsiella pneumoniae
BGC0000504.5	0.40	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000538.3	0.40	ribosomal	nisin Z	Lactococcus lactis
BGC0002382.3	0.39	ribosomal	grimoviridin	Grimontia marina
BGC0001289.5	0.39	ribosomal	penisin	Paenibacillus ehimensis
BGC0000500.5	0.39	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0002064.2	0.37	ribosomal	felipeptin A2, felipeptin A1	Amycolatopsis sp. YIM 10
BGC0000497.3	0.37	ribosomal	BHT-Aα, BHT-Aβ	Streptococcus ratti
BGC0000541.5	0.37	ribosomal	paenicidin A	Paenibacillus polymyxa

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.57 out of 26.33

Confidence: medium

TFBS Finder

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator

NZ_JADKRR010000001.1 - Region 4 - T3PKS

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Location: 1,621,634 - 1,662,854 nt. (total: 41,221 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: oxidoreductase oxygenase

ITJ40_RS07755: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

ITJ40_RS07805: monooxygenase FAD-binding

smcogs: SMCOG1050: monooxygenase FAD-binding

Transferases: acetyltransferase

ITJ40_RS07820: GCN5-related N-acetyltransferase

smcogs: SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: hydrolase

ITJ40_RS07710: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

ITJ40_RS07715: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Isomerases: isomerase

ITJ40_RS07855: isochorismate synthase

smcogs: SMCOG1018: isochorismate synthase

Ligases: synthase

ITJ40_RS07795: chalcone and stilbene synthase domain protein

smcogs: SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.54	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001962.3	0.51	PKS	hierridin B, hierridin C	Cyanobium sp. LEGE 06113
BGC0002332.2	0.50	PKS	4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A	Candidatus Entotheonella sp.
BGC0001905.4	0.50	PKS	violapyrone B	Streptomyces somaliensis
BGC0001077.4	0.47	PKS	6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone	Actinoplanes missouriensis 431
BGC0002698.2	0.46	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0001831.3	0.45	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0002362.3	0.44	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0001529.5	0.43	other (other)	benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K	Streptomyces sp. RI18
BGC0002150.2	0.42	ribosomal	triculamin	Streptomyces triculaminicus

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000282.3	0.54	PKS	2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001962.3	0.51	PKS	hierridin B, hierridin C	Cyanobium sp. LEGE 06113
BGC0002332.2	0.50	PKS	4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A	Candidatus Entotheonella sp.
BGC0001905.4	0.50	PKS	violapyrone B	Streptomyces somaliensis
BGC0001077.4	0.47	PKS	6-anteisoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrogeranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-geranyl-2-methoxyhydroquinone, 6-palmityl-4-O-geranyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-geranyl-2-methoxyhydroquinone, 6-isopalmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-palmityl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-anteisoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone, 6-isoheptadecyl-4-O-dihydrofarnesyl-2-methoxyhydroquinone	Actinoplanes missouriensis 431
BGC0002698.2	0.46	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0001831.3	0.45	PKS	alkylpyrone-407, alkylpyrone-393	Myxococcus xanthus DK 1622
BGC0002362.3	0.44	PKS	loseolamycin A1, loseolamycin A2	Micromonospora endolithica
BGC0001529.5	0.43	other (other)	benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K	Streptomyces sp. RI18
BGC0002150.2	0.42	ribosomal	triculamin	Streptomyces triculaminicus

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AfsR

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

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 26.01 out of 29.65

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.65 out of 24.78

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 24.83 out of 29.65

Confidence: medium

LexA variant 1

Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 26.01 out of 29.65

Confidence: medium

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.65 out of 24.78

Confidence: medium

Additional weak hits (5):

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.50 out of 20.01

Confidence: weak

LexA variant 1

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

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.21 out of 24.78

Confidence: weak

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 13.31 out of 26.06

Confidence: weak

MexT

Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 15.53 out of 21.84

Confidence: weak

Detailed domain annotation

Selected features only

Show module domains

TFBS Finder

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
LexA variant 1	Repressor of DNA damage response
LexA variant 2	Repressor of DNA damage response

NZ_JADKRR010000001.1 - Region 5 - betalactone,terpene-precursor

Download region GenBank file

Download region SVG

Location: 2,022,173 - 2,057,866 nt. (total: 35,694 nt) Show pHMM detection rules used

terpene-precursor: (PT_FPPS_like and not PT_HPP)
betalactone: (HMGL-like and AMP-binding)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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

ITJ40_RS09630: pyridine nucleotide-disulfide oxidoreductase

smcogs: SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: acyltransferase carboxylase

ITJ40_RS09610: acyltransferase

smcogs: SMCOG1141: acyltransferase

ITJ40_RS09635: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Hydrolases: deformylase

ITJ40_RS09625: peptide deformylase

smcogs: SMCOG1275: peptide deformylase

Ligases: ligase synthetase

ITJ40_RS09585: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

ITJ40_RS09620: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000677.5	0.31	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0002309.2	0.29	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3	0.26	terpene	raimonol	Streptomyces anulatus
BGC0001910.4	0.26	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0001456.3	0.26	terpene	isorenieratene	Streptomyces argillaceus
BGC0000664.5	0.26	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0002561.3	0.25	other (other)	phenazine SA, phenazine SB, phenazine SC	Streptomyces sp.
BGC0000633.3	0.25	terpene	carotenoid	Streptomyces avermitilis
BGC0000649.3	0.25	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000936.5	0.25	other (other)	pyocyanine	Pseudomonas aeruginosa PAO1

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002309.2	0.47	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000677.5	0.46	terpene	cyclooctatin	Streptomyces melanosporofaciens
BGC0000649.3	0.43	terpene	carotenoid	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001911.3	0.43	terpene	raimonol	Streptomyces anulatus
BGC0002284.3	0.43	other (other)	corynecin III, corynecin I, corynecin II	Rhodococcus sp. H-CA8f
BGC0001910.4	0.43	terpene	cyslabdan A, cyslabdan B, cyslabdan C	Streptomyces cyslabdanicus
BGC0000664.5	0.43	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.3	0.42	terpene	isorenieratene	Streptomyces argillaceus
BGC0002561.3	0.42	other (other)	phenazine SA, phenazine SB, phenazine SC	Streptomyces sp.
BGC0000678.5	0.42	terpene	pentalenolactone	Streptomyces avermitilis MA-4680 = NBRC 14893

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

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

Genes with terpene domains:

ITJ40_RS09585: PT_FPPS_like

Domain 1 (45 - 371): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

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

Transcription Factor Binding Sites

Binding sites found:

VqsM

Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.07 out of 20.47

Confidence: medium

Additional weak hits (4):

ArcA

Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 14.80 out of 21.55

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 21.72 out of 35.63

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 16.21 out of 33.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 15.77 out of 33.14

Confidence: weak

Terpene

TFBS Finder

Glossary

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

TFBS definitions

Regulator	Description
VqsM	Regulator of quorum-sensing signalling systems

NZ_JADKRR010000001.1 - Region 6 - lanthipeptide-class-ii

Download region GenBank file

Download region SVG

Location: 2,130,613 - 2,153,771 nt. (total: 23,159 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase

ITJ40_RS10045: aldehyde dehydrogenase

smcogs: SMCOG1017: aldehyde dehydrogenase

ITJ40_RS10120: acyl-CoA dehydrogenase type 2

smcogs: SMCOG1191: acyl-CoA dehydrogenase type 2

Lyases: cyclase

ITJ40_RS10090: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000528.5	0.90	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0000527.5	0.48	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0002346.3	0.48	ribosomal	kyamicin	Saccharopolyspora sp.
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001579.4	0.47	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000503.5	0.46	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0002700.2	0.45	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0001210.5	0.45	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000626.3	0.44	ribosomal	thuricin	Bacillus thuringiensis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000528.5	0.90	ribosomal	michiganin A	Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000525.5	0.50	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0000527.5	0.48	ribosomal	mersacidin	Bacillus sp. HIL-Y85/54728
BGC0002346.3	0.48	ribosomal	kyamicin	Saccharopolyspora sp.
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0001579.4	0.47	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000503.5	0.46	ribosomal	cinnamycin	Streptomyces cinnamoneus
BGC0002700.2	0.45	ribosomal	bacinapeptin	Bacillus nakamurai
BGC0001210.5	0.45	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000626.3	0.44	ribosomal	thuricin	Bacillus thuringiensis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for ITJ40_RS10090

ITJ40_RS10085

Leader:

MNDILETEPPVMVSPRWDMLLDAGDETSPSVQTQIDAEFRRVVSPYM

Core:

ASSGWLCTLTIECGTFICACR

Core with dehydrations:

ADhaDhaGWLCysDhbLDhbIECysGDhbFICysACysR

antiSMASH-DB 4.0 matches for ITJ40_RS10085

100.0%

NZ_CP061274.1and 1 other:

NZ_JADKRR010000001.1 Lanthipeptides: ITJ40_RS10085_lanthipeptide

Lanthipeptides: H9X71_RS09850_lanthipeptide

1

ASSGWLCTLTIECGTFICACR

21

ASSGWLCTLTIECGTFICACR

1

ASSGWLCTLTIECGTFICACR

21

95.2%

NZ_AUBN01000022.1:

Lanthipeptides: G448_RS16025_lanthipeptide

1

ASSGWLCTLTIECGTFICACR

21

ASSGW CTLTIECGTFICACR

1

ASSGWFCTLTIECGTFICACR

21

90.5%

NC_009480.1and 10 others:

NZ_CP033724.1 Lanthipeptides: EFE39_RS10220_lanthipeptideNZ_CP047051.1 Lanthipeptides: GRD74_RS10365_lanthipeptideNZ_CP047054.1 Lanthipeptides: GRD61_RS10460_lanthipeptideNZ_CP053860.1 Lanthipeptides: DQP62_RS10825_lanthipeptideNZ_CP076352.1 Lanthipeptides: KN218_RS09900_lanthipeptideNZ_CP085137.1 Lanthipeptides: LHJ48_RS10290_lanthipeptideNZ_CP085140.1 Lanthipeptides: LHJ47_RS10305_lanthipeptideNZ_CP095274.1 Lanthipeptides: MU580_RS10460_lanthipeptideNZ_PSTW01000024.1 Lanthipeptides: C5C03_RS09675_lanthipeptideNZ_SISU01000002.1 Lanthipeptides: EOG37_RS09890_lanthipeptide

Lanthipeptides: CMM_RS10575_lanthipeptide

1

ASSGWLCTLTIECGTFICACR

21

+SSGWLCTLTIECGT ICACR

1

SSSGWLCTLTIECGTIICACR

21

with 99 more sequence matches

Only the first 10 are displayed here.

85.7%

NZ_CP028130.1:

Lanthipeptides: C7V51_RS14690_lanthipeptide

1

ASSGWLCTLTIECGTFICACR

21

SSGW+CTLTIECGT ICACR

1

GSSGWMCTLTIECGTIICACR

21

81.0%

NZ_CP015515.1and 1 other:

NZ_PSUO01000011.1 Lanthipeptides: C5C18_RS08595_lanthipeptide

Lanthipeptides: A6122_RS12855_lanthipeptide

1

ASSGWLCTLTIECGTFICACR

21

SSGW+CTLTIECGT +CACR

1

GSSGWMCTLTIECGTVVCACR

21

81.0%

NZ_JAGPXN010000019.1:

Lanthipeptides: KBX06_RS22045_lanthipeptide

2

SSGWLCTLTIECGTFICACR

21

SSGW+CTLTIECGT +CACR

1

SSGWVCTLTIECGTVVCACR

20

76.2%

NZ_CP036455.1:

Lanthipeptides: EKD16_RS25235_lanthipeptide

2

SSGWLCTLTIECGTFICACR

21

SSGW+CTLTIECGT +CAC+

1

SSGWVCTLTIECGTLVCACQ

20

76.2%

NZ_JAODUN010000003.1:

Lanthipeptides: BXY51_RS10560_lanthipeptide

2

SSGWLCTLTIECGTFICAC

20

SSGW+CTLTIECGT +CAC

1

SSGWVCTLTIECGTLVCAC

19

76.2%

NZ_KB895893.1and 1 other:

NZ_KB900614.1 Lanthipeptides: SALPAC6_RS0114155_lanthipeptide

Lanthipeptides: C569_RS0129325_lanthipeptide

2

SSGWLCTLTIECGTFICACR

21

SSGW+CTLTIECGT +CAC+

1

SSGWVCTLTIECGTVVCACQ

20

47.6%

NZ_CP086242.1and 1 other:

NZ_CP086245.1 Lanthipeptides: LL037_RS25615_lanthipeptide

Lanthipeptides: LL038_RS25355_lanthipeptide

1

ASSGWLCTLTIECGTF

16

ASSG +CT T EC F

1

ASSGAICTATTECTYF

16

42.9%

NZ_CP036073.1and 11 others:

NZ_CP036073.1 Lanthipeptides: EXW45_RS04930_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04925_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04920_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04915_lanthipeptideNZ_CP036073.1 Lanthipeptides: EXW45_RS04910_lanthipeptideNZ_NUEG01000031.1 Lanthipeptides: CN905_RS18915_lanthipeptideNZ_NUEG01000031.1 Lanthipeptides: CN905_RS18910_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05275_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05270_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05265_lanthipeptideNZ_PVRT01000001.1 Lanthipeptides: C6359_RS05260_lanthipeptide

Lanthipeptides: EXW45_RS04935_lanthipeptide

1

ASSGWLCTLTIECGTFICAC

20

A GWLCT+T +C + C

1

AGCGWLCTVTDDCPNSVFVC

20

42.9%

NZ_CP036170.1:

Lanthipeptides: HDCHBGLK_RS18795_lanthipeptide

3

SGWLCTLTIECGTFI

17

G+L T TI+CGTF+

1

EGFLST-TIKCGTFL

14

42.9%

NZ_CP048273.1and 3 others:

NZ_CP048273.1 Lanthipeptides: M654_RS18555_lanthipeptideNZ_LT745776.1 Lanthipeptides: B2C81_RS11280_lanthipeptideNZ_LT745776.1 Lanthipeptides: B2C81_RS11275_lanthipeptide

Lanthipeptides: M654_RS18560_lanthipeptide

1

ASSGWLCTLTIEC--GTFIC

18

A GW CT+T +C F+C

1

AGCGWACTITDDCPNSVFVC

20

MIBiG 4.0 matches for ITJ40_RS10085

26.7%

BGC0002110.3 (QKV49893.1):

Lanthipeptide: birimositide

2

SSGWLCTLTIEC

13

+ GW CTLT EC

15

NGGW-CTLTKEC

25

25.0%

BGC0000517.4 (BAB04173.1):

Lanthipeptide: haloduracin β or haloduracin α

1

ASSGWLCTLTIEC

13

+ G CTLT+EC

11

GNKGAYCTLTVEC

23

12.8%

BGC0001229.4 (SBI_06990):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

7

CTLTIEC

13

CTL+ EC

28

CTLSKEC

34

allorf_2140126_2140302

Leader:

MFLLSRMDPSRSARTVVVRAA

Core:

PIPMARGPSQVRLAPGDRGSARLGRCGVDAQPVRDPS

Core with dehydrations:

PIPMARGPDhaQVRLAPGDRGDhaARLGRCysGVDAQPVRDPDha

antiSMASH-DB 4.0 matches for allorf_2140126_2140302

100.0%

NZ_JADKRR010000001.1:

Lanthipeptides: allorf_2140126_2140302_lanthipeptide

1

PIPMARGPSQVRLAPGDRGSARLGRCGVDAQPVRDPS

37

PIPMARGPSQVRLAPGDRGSARLGRCGVDAQPVRDPS

1

PIPMARGPSQVRLAPGDRGSARLGRCGVDAQPVRDPS

37

24.3%

NZ_QGTL01000006.1:

Lanthipeptides: allorf_321760_321906_lanthipeptide

12

RLAPGDRGSARLGRCGVDAQ

31

R+ PG G+AR+G + AQ

14

RVPPGPSGTARIGSQRLAAQ

33

21.6%

NC_019757.1:

Lanthipeptides: allorf_3742552_3742680_lanthipeptide

20

SARLGRCGVDAQPVRDP

36

SAR+ RC V ++ R+P

10

SARVVRCWVKSRNERNP

26

with 1 more sequence matches

20.5%

NZ_CP017171.1:

Lanthipeptides: allorf_7652578_7652769_lanthipeptide

6

RGPSQVRLAPGDRGSARLGRCG

27

RGP Q + P R + RCG

6

RGPVQAFMQPFARSPSTPARCG

27

allorf_2147275_2147397

Leader:

MMTKSPHALRRLHGS

Core:

RPRSRCISCEEMCKITLWTLVDGTQ

Core with dehydrations:

RPRDhaRCysIDhaCysEEMCysKIDhbLWDhbLVDGDhbQ

antiSMASH-DB 4.0 matches for allorf_2147275_2147397

100.0%

NZ_JADKRR010000001.1:

Lanthipeptides: allorf_2147275_2147397_lanthipeptide

1

RPRSRCISCEEMCKITLWTLVDGTQ

25

RPRSRCISCEEMCKITLWTLVDGTQ

1

RPRSRCISCEEMCKITLWTLVDGTQ

25

24.4%

NZ_AP022871.1and 1 other:

NZ_AP022871.1 Lanthipeptides: allorf_02608365_02608586_lanthipeptide

Lanthipeptides: allorf_02608365_02608586_lanthipeptide

3

RSRCISCEEMC--KITLWTLVDGT

24

RS CISC C ++T T GT

6

RSACISCPPHCTHRLTACTGASGT

29

20.0%

NZ_AP018194.1:

Lanthipeptides: CA739_RS01290_lanthipeptide

5

RCISCEEMCKITLWTL

20

RC++C + LW++

1

RCVNCTRKIQCYLWSI

16

with 2 more sequence matches

20.0%

NZ_CP036455.1:

Lanthipeptides: allorf_1457494_1457619_lanthipeptide

1

RPRSRCIS

8

RPR+RC+

6

RPRARCLG

13

14.0%

NZ_CP011131.1and 1 other:

NZ_CP090945.1 Lanthipeptides: L1A79_RS22855_lanthipeptide

Lanthipeptides: LG3211_RS26165_lanthipeptide

1

RPRSRCISCEEMCKITLWT

19

RPR I C + K+ +T

30

RPRDAGIDCTKPYKLRRFT

48

allorf_2147485_2147667

Leader:

MGQRAVAQLGS

Core:

ALDWGSRGRRFKSCQPDGHASEGPDGSGRGIRRMYAGIVAVNSMVDAPT

Core with dehydrations:

ALDWGDhaRGRRFKDhaCysQPDGHADhaEGPDGDhaGRGIRRMYAGIVAVNDhaMVDAPDhb

antiSMASH-DB 4.0 matches for allorf_2147485_2147667

100.0%

NZ_JADKRR010000001.1:

Lanthipeptides: allorf_2147485_2147667_lanthipeptide

1

ALDWGSRGRRFKSCQPDGHASEGPDGSGRGIRRMYAGIVAVNSMVDAPT

49

ALDWGSRGRRFKSCQPDGHASEGPDGSGRGIRRMYAGIVAVNSMVDAPT

1

ALDWGSRGRRFKSCQPDGHASEGPDGSGRGIRRMYAGIVAVNSMVDAPT

49

54.0%

NZ_SISU01000002.1:

Lanthipeptides: allorf_784456_784641_lanthipeptide

1

ALDWGSRGRRFKSCQPDGHASEGPDGSGRG--IRRMY

35

ALDWGSRGRRFKSCQPDGHASEGP+G ++R Y

1

ALDWGSRGRRFKSCQPDGHASEGPNGPSEAFFVKRAY

37

51.0%

NZ_CP033724.1and 3 others:

NZ_CP085137.1 Lanthipeptides: allorf_2198282_2198461_lanthipeptideNZ_CP085140.1 Lanthipeptides: allorf_2198287_2198466_lanthipeptideNZ_CP095274.1 Lanthipeptides: allorf_2247381_2247521_lanthipeptide

Lanthipeptides: allorf_2198300_2198479_lanthipeptide

1

ALDWGSRGRRFKSCQPDGHASEGPDG

26

ALDWGSRGRRFKSCQPDGHASEGP G

1

ALDWGSRGRRFKSCQPDGHASEGPMG

26

with 4 more sequence matches

51.0%

NZ_CP047051.1and 1 other:

NZ_CP076352.1 Lanthipeptides: allorf_2115916_2116095_lanthipeptide

Lanthipeptides: allorf_2221797_2221976_lanthipeptide

1

ALDWGSRGRRFKSCQPDGHASEGPDG

26

ALDWGSRGRRFKSCQPDGHASEGP G

1

ALDWGSRGRRFKSCQPDGHASEGPSG

26

20.4%

NZ_AP022871.1:

Lanthipeptides: allorf_10021069_10021233_lanthipeptide

5

GSRGRRFKSCQPDGHASEG

23

G+RG R SC P G S G

2

GARGARTSSCVPRGSLSGG

20

18.4%

NZ_CP098485.1:

Lanthipeptides: allorf_6386547_6386756_lanthipeptide

16

PDGHASEGPDGSGRGIRR

33

P G A+ GP +G GI+R

27

PPGRANRGPSVTGGGIKR

44

15.1%

NZ_CP023465.1:

Lanthipeptides: allorf_4124021_4124236_lanthipeptide

19

HASEGPDGSGRGIRRMYAGI

38

HA+E DG + R+ AG+

4

HAAEAIDGYAKVWSRIRAGV

23

MIBiG 4.0 matches for allorf_2147485_2147667

14.3%

BGC0001229.4 (SBI_06989):

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

30

GIRRMYAGIVAVNSMVDAPT

49

GI + AG+ S PT

11

GIVAIQAGVAVGVSAAFCPT

30

8.2%

BGC0001229.4 (SBI_06990)and 1 other:

BGC0002110.3 (QKV49893.1) Lanthipeptide: birimositide

Lanthipeptide: SBI-06990 A1 or SBI-06989 A2

12

KSCQPDGH

19

K CQP+ +

32

KECQPNCN

39

allorf_2147511_2147642

Leader:

MVAHLTGGQGVAGS

Core:

NPVSPTDMPRKDLMGPAGAFVVCTQASLR

Core with dehydrations:

NPVDhaPDhbDMPRKDLMGPAGAFVVCysDhbQADhaLR

antiSMASH-DB 4.0 matches for allorf_2147511_2147642

100.0%

NZ_JADKRR010000001.1:

Lanthipeptides: allorf_2147511_2147642_lanthipeptide

1

NPVSPTDMPRKDLMGPAGAFVVCTQASLR

29

NPVSPTDMPRKDLMGPAGAFVVCTQASLR

1

NPVSPTDMPRKDLMGPAGAFVVCTQASLR

29

20.0%

NZ_BROP01000004.1:

Lanthipeptides: OPC11_RS12075_lanthipeptide

3

VSPTDMPRKDLMGPA

17

S T+ DL+GPA

6

TSETEFDEDDLLGPA

20

17.2%

NZ_BJTV01000007.1:

Lanthipeptides: allorf_030107_030208_lanthipeptide

15

GPAGAFVVCTQA

26

GP+GA+ C +

8

GPSGAWTWCGEG

19

with 2 more sequence matches

16.7%

NZ_CP033724.1and 3 others:

NZ_CP085137.1 Lanthipeptides: allorf_2198282_2198461_lanthipeptideNZ_CP085140.1 Lanthipeptides: allorf_2198287_2198466_lanthipeptideNZ_CP095274.1 Lanthipeptides: allorf_2247381_2247521_lanthipeptide

Lanthipeptides: allorf_2198300_2198479_lanthipeptide

14

MGPAGAFVV

22

MGPAGAFV+

25

MGPAGAFVI

33

16.7%

NZ_CP047051.1and 1 other:

NZ_CP076352.1 Lanthipeptides: allorf_2115916_2116095_lanthipeptide

Lanthipeptides: allorf_2221797_2221976_lanthipeptide

15

GPAGAFVV

22

GPAGAFVV

26

GPAGAFVV

33

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

ANR

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

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.16 out of 30.11

Confidence: medium

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 23.69 out of 30.11

Confidence: medium

VqsM

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

Confidence: medium

VqsM

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

Confidence: medium

Additional weak hits (2):

RutR

Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.44 out of 26.85

Confidence: weak

MexT

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

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

ITJ40_RS10085 - Class II

Cleavage pHMM score: -3.60

RODEO score: 0

Monoisotopic mass: 2144.0 Da

Molecular weight: 2145.5 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 2163.5 Da N = 1

allorf_2140126_2140302 - Class II

Cleavage pHMM score: -6.40

RODEO score: 0

Monoisotopic mass: 3785.0 Da

Molecular weight: 3787.3 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 3805.3 Da N = 1; 3823.3 Da N = 2

allorf_2147275_2147397 - Class II

Cleavage pHMM score: -4.10

RODEO score: 0

Monoisotopic mass: 2834.4 Da

Molecular weight: 2836.3 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 2854.3 Da N = 1; 2872.4 Da N = 2

allorf_2147485_2147667 - Class II

Cleavage pHMM score: -5.70

RODEO score: 0

Monoisotopic mass: 5079.5 Da

Molecular weight: 5082.6 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 5100.6 Da N = 1; 5118.7 Da N = 2; 5136.7 Da N = 3; 5154.7 Da N = 4; 5172.7 Da N = 5

allorf_2147511_2147642 - Class II

Cleavage pHMM score: -4.60

RODEO score: 0

Monoisotopic mass: 2985.5 Da

Molecular weight: 2987.5 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 3005.5 Da N = 1; 3023.5 Da N = 2; 3041.5 Da N = 3

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
CelR	Cellobiose uptake repressor
VqsM	Regulator of quorum-sensing signalling systems

NZ_JADKRR010000002.1 - Region 1 - azole-containing-RiPP

Download region GenBank file

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Location: 232,150 - 254,551 nt. (total: 22,402 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Azole RiPPs

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase

ITJ40_RS11485: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

Translocases: transporter

ITJ40_RS11505: sugar-binding lipoprotein

smcogs: SMCOG1143: sugar-binding lipoprotein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002144.3	0.47	ribosomal	phazolicin	Rhizobium sp. Pop5
BGC0002013.4	0.47	ribosomal	curacozole	Streptomyces curacoi
BGC0000569.5	0.41	ribosomal	plantazolicin	Bacillus velezensis FZB42
BGC0000571.3	0.41	ribosomal	burhizin	Paraburkholderia rhizoxinica HKI 454
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000515.4	0.39	ribosomal	geobacillin I	Geobacillus thermodenitrificans NG80-2
BGC0002346.3	0.39	ribosomal	kyamicin	Saccharopolyspora sp.
BGC0000845.5	0.39	other (non-nrp beta-lactam)	clavulanic acid	Streptomyces clavuligerus ATCC 27064
BGC0000537.3	0.39	ribosomal	nisin U	Streptococcus uberis
BGC0001789.3	0.39	ribosomal	suicin 90-1330	Streptococcus suis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002144.3	0.47	ribosomal	phazolicin	Rhizobium sp. Pop5
BGC0002013.4	0.47	ribosomal	curacozole	Streptomyces curacoi
BGC0000569.5	0.41	ribosomal	plantazolicin	Bacillus velezensis FZB42
BGC0000571.3	0.41	ribosomal	burhizin	Paraburkholderia rhizoxinica HKI 454
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000515.4	0.39	ribosomal	geobacillin I	Geobacillus thermodenitrificans NG80-2
BGC0002346.3	0.39	ribosomal	kyamicin	Saccharopolyspora sp.
BGC0000845.5	0.39	other (non-nrp beta-lactam)	clavulanic acid	Streptomyces clavuligerus ATCC 27064
BGC0000537.3	0.39	ribosomal	nisin U	Streptococcus uberis
BGC0001789.3	0.39	ribosomal	suicin 90-1330	Streptococcus suis

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AfsR

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

Confidence: medium

Additional weak hits (2):

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 17.54 out of 28.19

Confidence: weak

ZuR variant 1

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

Confidence: weak

(Thi)azol(in)e containing peptide predictions

No core peptides found.

TFBS Finder

Azole RiPPs

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production

Core peptide predictions

No core peptides found.

NZ_JADKRR010000002.1 - Region 2 - terpene

Download region GenBank file

Download region SVG

Location: 338,595 - 363,016 nt. (total: 24,422 nt) Show pHMM detection rules used

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase

ITJ40_RS12060: dehydrogenase

smcogs: SMCOG1222: dehydrogenase

Transferases: methyltransferase

ITJ40_RS12075: methyltransferase

smcogs: SMCOG1248: methyltransferase

Ligases: synthetase

ITJ40_RS12065: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

Translocases: transport

ITJ40_RS12090: MMPL domain-containing transport protein

smcogs: SMCOG1035: MMPL domain-containing transport protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000644.3	0.65	terpene	carotenoid	Dietzia sp. CQ4
BGC0000637.3	0.58	terpene	carotenoid	Corynebacterium glutamicum
BGC0000648.3	0.56	terpene	carotenoid	Myxococcus xanthus
BGC0000650.3	0.51	terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000664.5	0.48	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000636.3	0.47	terpene	carotenoid	Brevibacterium linens
BGC0002309.2	0.46	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000642.3	0.46	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000643.3	0.45	terpene	carotenoid	Brevundimonas vesicularis
BGC0000677.5	0.45	terpene	cyclooctatin	Streptomyces melanosporofaciens

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000644.3	0.65	terpene	carotenoid	Dietzia sp. CQ4
BGC0000637.3	0.58	terpene	carotenoid	Corynebacterium glutamicum
BGC0000648.3	0.56	terpene	carotenoid	Myxococcus xanthus
BGC0000650.3	0.51	terpene	carotenoid	Algoriphagus sp. KK10202C
BGC0000664.5	0.48	terpene	isorenieratene	Streptomyces griseus subsp. griseus NBRC 13350
BGC0000636.3	0.47	terpene	carotenoid	Brevibacterium linens
BGC0002309.2	0.46	terpene	cattleyene	Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000642.3	0.46	terpene	carotenoid	Enterobacteriaceae bacterium DC413
BGC0000643.3	0.45	terpene	carotenoid	Brevundimonas vesicularis
BGC0000677.5	0.45	terpene	cyclooctatin	Streptomyces melanosporofaciens

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Detailed terpene predictions

Product predictions:

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

Genes with terpene domains:

ITJ40_RS12050: Lycopene_cycl

Domain 1 (1 - 107): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

ITJ40_RS12055: Lycopene_cycl

Domain 1 (4 - 92): Lycopene cyclase

Reactions:: C40_carotenoid → C40_carotenoid

ITJ40_RS12060: PT_phytoene_like

Domain 1 (33 - 299): Prenyltransferase; Phytoene synthase like

Subtype: unknown

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

ITJ40_RS12065: PT_FPPS_like

Domain 1 (49 - 332): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: unknown

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

Transcription Factor Binding Sites

Binding sites found:

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 26.90 out of 30.12

Confidence: medium

Additional weak hits (8):

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 18.03 out of 26.33

Confidence: weak

SypG

Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 16.45 out of 29.25

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.58 out of 27.78

Confidence: weak

NuR

Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 19.95 out of 30.98

Confidence: weak

DasR

Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.24 out of 27.04

Confidence: weak

LexA variant 2

Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 17.87 out of 24.78

Confidence: weak

Terpene

TFBS Finder

Glossary

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

TFBS definitions

Regulator	Description
OsdR	Development and stress management regulator

NZ_JADKRR010000002.1 - Region 3 - NRPS-like

Download region GenBank file

Download region SVG

Location: 466,791 - 503,716 nt. (total: 36,926 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

TTA codons

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase oxidoreductase

ITJ40_RS12725: oxidoreductase

smcogs: SMCOG1079: oxidoreductase

ITJ40_RS12785: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: PPTase carboxylase

ITJ40_RS12755: acetyl-CoA carboxylase biotin carboxylase

smcogs: SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

ITJ40_RS12780: 4'-phosphopantetheinyl transferase

smcogs: SMCOG1060: 4'-phosphopantetheinyl transferase

Hydrolases: dehalogenase hydrolase

ITJ40_RS12700: haloalkane dehalogenase

smcogs: SMCOG1262: haloalkane dehalogenase

ITJ40_RS12730: alpha/beta hydrolase fold protein

smcogs: SMCOG1036: alpha/beta hydrolase fold protein

Lyases: dehydratase

ITJ40_RS12775: NAD-dependent epimerase/dehydratase

smcogs: SMCOG1010: NAD-dependent epimerase/dehydratase

Ligases: synthase

ITJ40_RS12685: cobalamin synthesis protein/P47K family protein

smcogs: SMCOG1178: cobalamin synthesis protein/P47K family protein

Translocases: permease

ITJ40_RS12770: phenylalanine-specific permease

smcogs: SMCOG1038: phenylalanine-specific permease

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000866.5	0.50	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0001928.2	0.47	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0001873.3	0.46	NRPS	pyrrolizixenamide A	Xenorhabdus szentirmaii DSM 16338
BGC0002404.2	0.45	other (other)	falcarindiol	Solanum lycopersicum
BGC0000234.5	0.44	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001895.4	0.44	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0001987.2	0.44	PKS	koreenceine A, koreenceine B, koreenceine C, koreenceine D	Pseudomonas koreensis
BGC0002387.2	0.43	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0002514.3	0.43	PKS	julichrome Q6.6	Streptomyces sampsonii
BGC0001267.3	0.43	terpene	elymoclavine, Agroclavine I	Claviceps fusiformis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000866.5	0.50	other (other)	polyhydroxyalkanoate	Burkholderia sp. DSM 9242
BGC0001928.2	0.47	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0001873.3	0.46	NRPS	pyrrolizixenamide A	Xenorhabdus szentirmaii DSM 16338
BGC0002404.2	0.45	other (other)	falcarindiol	Solanum lycopersicum
BGC0000234.5	0.44	PKS	jadomycin	Streptomyces venezuelae ATCC 10712
BGC0001895.4	0.44	PKS	huanglongmycin A, huanglongmycin B, huanglongmycin C	Streptomyces sp. CB09001
BGC0001987.2	0.44	PKS	koreenceine A, koreenceine B, koreenceine C, koreenceine D	Pseudomonas koreensis
BGC0002387.2	0.43	PKS	yangpumicin A	Micromonospora yangpuensis
BGC0002514.3	0.43	PKS	julichrome Q6.6	Streptomyces sampsonii
BGC0001267.3	0.43	terpene	elymoclavine, Agroclavine I	Claviceps fusiformis

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.67 out of 20.01

Confidence: medium

Additional weak hits (9):

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.55 out of 32.74

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.71 out of 29.38

Confidence: weak

ArcA

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

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 16.99 out of 30.97

Confidence: weak

MatP

Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.33 out of 25.75

Confidence: weak

NrtR

Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.17 out of 35.63

Confidence: weak

CelR

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

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.10 out of 30.11

Confidence: weak

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 16.12 out of 27.78

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 3, location 466790 - 503716:

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

ITJ40_RS12775: X

AMP-binding (24..457): X

nrpys: (unknown)

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: AAALHLTGRSSAVFAAGGERQA-------ICTSA
Nearest Stachelhaus code(s):: bOH-Tyr DTSKVAAICK (26% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ArgR	Regulator of arginine biosynthesis genes

NZ_JADKRR010000003.1 - Region 1 - NI-siderophore

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Download region SVG

Location: 101,178 - 131,676 nt. (total: 30,499 nt) Show pHMM detection rules used

NI-siderophore: IucA_IucC

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

TTA codons

binding site

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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

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Automatically zoom to filtered/selected features

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

Tailoring functions

Oxidoreductases: dehydrogenase oxygenase

ITJ40_RS13395: crotonyl-CoA reductase / alcohol dehydrogenase

smcogs: SMCOG1028: crotonyl-CoA reductase / alcohol dehydrogenase

ITJ40_RS13410: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

ITJ40_RS13430: lysine/ornithine N-monooxygenase

smcogs: SMCOG1080: lysine/ornithine N-monooxygenase

ITJ40_RS13465: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: hydrolase

ITJ40_RS13380: alpha/beta hydrolase domain-containing protein

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

Lyases: decarboxylase

ITJ40_RS13435: Decarboxylase, pyridoxal-dependent

smcogs: SMCOG1180: Decarboxylase, pyridoxal-dependent

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001572.3	0.72	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001478.5	0.66	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.64	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.5	0.63	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0002305.2	0.63	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0000940.5	0.63	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0000244.4	0.60	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0002620.2	0.59	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina
BGC0002073.3	0.57	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001572.3	0.72	other (other)	desferrioxamine E	Pantoea agglomerans
BGC0001478.5	0.66	other (other)	desferrioxamine E	Streptomyces sp. ID38640
BGC0000941.3	0.64	other (other)	desferrioxamin B	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001453.5	0.63	other (other)	desferrioxamine	Streptomyces argillaceus
BGC0002305.2	0.63	other (other)	legonoxamine A, desferrioxamine B, legonoxamine B	Streptomyces sp.
BGC0000940.5	0.63	other (other)	desferrioxamin B, desferrioxamine E	Streptomyces coelicolor A3(2)
BGC0000244.4	0.60	PKS	nonactin, monactin, dinactin, trinactin, tetranactin	Streptomyces griseus subsp. griseus
BGC0002620.2	0.59	other (other)	fulvivirgamide A2, fulvivirgamide B2, fulvivirgamide B3, fulvivirgamide B4	Fulvivirga marina
BGC0002073.3	0.57	NRPS	dehydroxynocardamine	Corynebacterium propinquum
BGC0002276.2	0.56	NRPS	choline	Aspergillus nidulans FGSC A4

Similar known clusters from MIBiG 4.0

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

DmdR1

Description: Iron(II)-dependent repressor
Species: Streptomyces coelicolor
Score: 30.88 out of 36.53

Confidence: medium

VqsM

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

Confidence: medium

Additional weak hits (7):

ANR

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

Confidence: weak

MexT

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

Confidence: weak

SypG

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

Confidence: weak

MexT

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 18.88 out of 28.19

Confidence: weak

NrtR

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

Confidence: weak

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.64 out of 28.19

Confidence: weak

TFBS Finder

TFBS definitions

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

NZ_JADKRR010000005.1 - Region 1 - RiPP-like

Download region GenBank file

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Location: 82,808 - 94,384 nt. (total: 11,577 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

TTA codons

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

No tailoring functions detected.

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001638.4	0.50	ribosomal	klebsazolicin	Klebsiella pneumoniae subsp. ozaenae
BGC0002115.3	0.43	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0002442.3	0.37	ribosomal	toyoncin	Bacillus toyonensis
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)
BGC0000504.5	0.35	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0002698.2	0.35	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000500.5	0.35	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0002447.3	0.32	ribosomal	cerecyclin	Bacillus cereus
BGC0000538.3	0.31	ribosomal	nisin Z	Lactococcus lactis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001638.4	0.50	ribosomal	klebsazolicin	Klebsiella pneumoniae subsp. ozaenae
BGC0002115.3	0.43	ribosomal	streptamidine	Streptomyces albidoflavus J1074
BGC0002442.3	0.37	ribosomal	toyoncin	Bacillus toyonensis
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)
BGC0000504.5	0.35	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0002698.2	0.35	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0000500.5	0.35	ribosomal	carnolysin A1, carnolysin A2	Carnobacterium maltaromaticum
BGC0002447.3	0.32	ribosomal	cerecyclin	Bacillus cereus
BGC0000538.3	0.31	ribosomal	nisin Z	Lactococcus lactis

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 (1):

ANR

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

Confidence: weak

TFBS Finder

TFBS definitions

Regulator	Description