GCF_015550825.1 - 8 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

NZ_JADNBM010000010.1 (Sellimonas intestinalis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1.1	nucleoside	4,993	26,033

NZ_JADNBM010000012.1 (Sellimonas intestinalis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 3.1	NRPS,transAT-PKS,hserlactone	1	45,922
Region 3.2	NRPS-like,cyclic-lactone-autoinducer	80,085	115,311

NZ_JADNBM010000019.1 (Sellimonas intestinalis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 10.1	ranthipeptide	12,728	34,173

NZ_JADNBM010000025.1 (Sellimonas intestinalis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 17.1	lanthipeptide-class-ii	1	13,819

NZ_JADNBM010000002.1 (Sellimonas intestinalis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 22.1	terpene-precursor	130,915	151,814

NZ_JADNBM010000009.1 (Sellimonas intestinalis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 45.1	ranthipeptide	82,721	104,372
Region 45.2	NRPS	111,331	141,009

Region	Type	From	To	Most similar known cluster
Region 1.1	nucleoside	4,993	26,033
Region 3.1	NRPS,transAT-PKS,hserlactone	1	45,922
Region 3.2	NRPS-like,cyclic-lactone-autoinducer	80,085	115,311
Region 10.1	ranthipeptide	12,728	34,173
Region 17.1	lanthipeptide-class-ii	1	13,819
Region 22.1	terpene-precursor	130,915	151,814
Region 45.1	ranthipeptide	82,721	104,372
Region 45.2	NRPS	111,331	141,009

No secondary metabolite regions were found in these records:: NZ_JADNBM010000011.1 (Sellimonas intestinalis); NZ_JADNBM010000013.1 (Sellimonas intestinalis); NZ_JADNBM010000014.1 (Sellimonas intestinalis); NZ_JADNBM010000015.1 (Sellimonas intestinalis); NZ_JADNBM010000016.1 (Sellimonas intestinalis); NZ_JADNBM010000017.1 (Sellimonas intestinalis); NZ_JADNBM010000018.1 (Sellimonas intestinalis); NZ_JADNBM010000001.1 (Sellimonas intestinalis); NZ_JADNBM010000020.1 (Sellimonas intestinalis); NZ_JADNBM010000021.1 (Sellimonas intestinalis); NZ_JADNBM010000022.1 (Sellimonas intestinalis); NZ_JADNBM010000023.1 (Sellimonas intestinalis); NZ_JADNBM010000024.1 (Sellimonas intestinalis); NZ_JADNBM010000026.1 (Sellimonas intestinalis); NZ_JADNBM010000027.1 (Sellimonas intestinalis); NZ_JADNBM010000028.1 (Sellimonas intestinalis); NZ_JADNBM010000029.1 (Sellimonas intestinalis); NZ_JADNBM010000030.1 (Sellimonas intestinalis); NZ_JADNBM010000031.1 (Sellimonas intestinalis); NZ_JADNBM010000032.1 (Sellimonas intestinalis); NZ_JADNBM010000033.1 (Sellimonas intestinalis); NZ_JADNBM010000034.1 (Sellimonas intestinalis); NZ_JADNBM010000035.1 (Sellimonas intestinalis); NZ_JADNBM010000036.1 (Sellimonas intestinalis); NZ_JADNBM010000037.1 (Sellimonas intestinalis); NZ_JADNBM010000038.1 (Sellimonas intestinalis); NZ_JADNBM010000039.1 (Sellimonas intestinalis); NZ_JADNBM010000003.1 (Sellimonas intestinalis); NZ_JADNBM010000040.1 (Sellimonas intestinalis); NZ_JADNBM010000041.1 (Sellimonas intestinalis); NZ_JADNBM010000042.1 (Sellimonas intestinalis); NZ_JADNBM010000043.1 (Sellimonas intestinalis); NZ_JADNBM010000044.1 (Sellimonas intestinalis); NZ_JADNBM010000045.1 (Sellimonas intestinalis); NZ_JADNBM010000004.1 (Sellimonas intestinalis); NZ_JADNBM010000005.1 (Sellimonas intestinalis); NZ_JADNBM010000006.1 (Sellimonas intestinalis); NZ_JADNBM010000007.1 (Sellimonas intestinalis); NZ_JADNBM010000008.1 (Sellimonas intestinalis)

Compact view

NZ_JADNBM010000010.1 - Region 1 - nucleoside

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Location: 4,993 - 26,033 nt. (total: 21,041 nt) Show pHMM detection rules used

Region on contig edge.

nucleoside: (LipM or LipV or LipU or TunD or pur6 or pur10 or nikJ or nikO or truD)

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core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

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Gene details

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Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

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TFBS Finder

Gene/CDS overview

Filter:

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

Tailoring functions

Oxidoreductases: dehydrogenase

I2A62_RS08870: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.45	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0001861.4	0.42	ribosomal	bacillicin BAG2O	Bacillus cereus BAG2O-1
BGC0000563.4	0.41	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0001226.4	0.41	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0002005.2	0.40	ribosomal	RaxX	Xanthomonas oryzae pv. oryzae
BGC0001579.4	0.40	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000616.4	0.40	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0000626.3	0.39	ribosomal	thuricin	Bacillus thuringiensis
BGC0001222.3	0.39	ribosomal	acidocin B	Lactobacillus acidophilus
BGC0000491.5	0.39	ribosomal	gassericin A	Lactobacillus gasseri

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.45	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0001861.4	0.42	ribosomal	bacillicin BAG2O	Bacillus cereus BAG2O-1
BGC0000563.4	0.41	ribosomal	venezuelin	Streptomyces venezuelae ATCC 10712
BGC0001226.4	0.41	ribosomal	streptocollin	Streptomyces collinus Tu 365
BGC0002005.2	0.40	ribosomal	RaxX	Xanthomonas oryzae pv. oryzae
BGC0001579.4	0.40	ribosomal	duramycin	Streptomyces cinnamoneus
BGC0000616.4	0.40	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0000626.3	0.39	ribosomal	thuricin	Bacillus thuringiensis
BGC0001222.3	0.39	ribosomal	acidocin B	Lactobacillus acidophilus
BGC0000491.5	0.39	ribosomal	gassericin A	Lactobacillus gasseri

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 18.98 out of 23.79

Confidence: medium

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.01 out of 26.06

Confidence: medium

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.59 out of 30.25

Confidence: medium

TFBS Finder

TFBS definitions

Regulator	Description
ColR	Phenol-responsive regulator
IolR	Regulator of the inositol catabolism
MogR	Repressor of flagellar motility genes

NZ_JADNBM010000012.1 - Region 1 - NRPS,hserlactone,transAT-PKS

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Location: 1 - 45,922 nt. (total: 45,922 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))
hserlactone: Autoind_synth

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

Transferases: acylase aminotransferase

I2A62_RS09930: malonyl CoA-acyl carrier protein transacylase

smcogs: SMCOG1021: malonyl CoA-acyl carrier protein transacylase

I2A62_RS09975: aminotransferase class-III

smcogs: SMCOG1013: aminotransferase class-III

Hydrolases: hydrolase

I2A62_RS09915: asparagine synthase (glutamine-hydrolyzing)

smcogs: SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Ligases: ligase synthase

I2A62_RS09910: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

I2A62_RS09920: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

I2A62_RS09925: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

I2A62_RS09940: condensation domain-containing protein

smcogs: SMCOG1127: condensation domain-containing protein

I2A62_RS09970: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.82	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001261.3	0.74	NRPS	AM-toxin	Alternaria alternata
BGC0000342.4	0.70	NRPS	enniatin	Fusarium equiseti
BGC0001135.5	0.69	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.67	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001276.3	0.67	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001273.3	0.67	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.66	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001166.5	0.66	NRPS	HC-toxin	Alternaria jesenskae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001249.5	0.73	NRPS	dimethylcoprogen	Alternaria alternata
BGC0001261.3	0.70	NRPS	AM-toxin	Alternaria alternata
BGC0000342.4	0.68	NRPS	enniatin	Fusarium equiseti
BGC0001135.5	0.67	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0001132.4	0.67	NRPS	xenotetrapeptide	Xenorhabdus nematophila ATCC 19061
BGC0001276.3	0.67	PKS	6-methylsalicyclic acid	Aspergillus terreus
BGC0002135.2	0.67	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0001273.3	0.67	PKS	asperlactone	Aspergillus ochraceus
BGC0001244.3	0.66	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001166.5	0.66	NRPS	HC-toxin	Alternaria jesenskae

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.86 out of 29.38

Confidence: medium

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.72 out of 29.38

Confidence: medium

ANR

Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 24.74 out of 26.33

Confidence: strong

ZuR variant 1

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

Confidence: medium

Additional weak hits (3):

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.76 out of 30.25

Confidence: weak

FuR variant 2

Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.97 out of 32.74

Confidence: weak

ColR

Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.41 out of 30.25

Confidence: weak

Module view

Legend

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS substrates

TFBS Finder

Predicted core structure(s)

For candidate cluster 1, location 0 - 45922:

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

Polymer prediction:: (mal - Gly) + (ccmal) + (Pro)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 0 - 44854:

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

Polymer prediction:: (mal - Gly) + (ccmal) + (Pro)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

I2A62_RS09900: Pro

Search NORINE for peptide: strict or relaxed

AMP-binding (12..413): Pro

nrpys: Pro

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FWESFDAMLRDTHCLMAGEVNLYGPSETTMVKMY
Nearest Stachelhaus code(s):: Asp DVRHFALMAK (68% 8Å match); Asp DPRHLALLAK (65% 8Å match)
Stachelhaus code match:: 70% (weak)

I2A62_RS09910: Pro

Search NORINE for peptide: strict or relaxed

AMP-binding (12..413): Pro

nrpys: Pro

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FWESFDAMLRDTHCLMAGEVNLYGPSETTMVKMY
Nearest Stachelhaus code(s):: Asp DVRHFALMAK (68% 8Å match); Asp DPRHLALLAK (65% 8Å match)
Stachelhaus code match:: 70% (weak)

I2A62_RS09925: Gly

Search NORINE for peptide: strict or relaxed

AMP-binding (1199..1583): Gly

nrpys: Gly

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FAMTFDIFQLECQALIGGEFNMYGPTETTIWSSL
Nearest Stachelhaus code(s):: Gly DILQLGMIWK (82% 8Å match)
Stachelhaus code match:: 100% (strong)

I2A62_RS09930: mal

PKS_AT (6..287): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 70.8%; inactive: 62.5%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 91.0
Methoxymalonyl-CoA: 42.3
inactive: 35.2
Methylmalonyl-CoA: 34.6
Propionyl-CoA: 16.9
Ethylmalonyl-CoA: 15.7
Acetyl-CoA: 7.5
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Isobutyryl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

I2A62_RS09970: X

AMP-binding (23..420): 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:: TNTVFETFYNSSFLLVTGSYEAYGINEVGLVSLN
Nearest Stachelhaus code(s):: Trp or Tyr DVMFYTALVK (35% 8Å match)
Stachelhaus code match:: 60% (weak)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
ANR	Anaerobic transcriptional regulator
FuR variant 1	Ferric Uptake Regulator
ZuR variant 1	Zinc-responsive repressor

NZ_JADNBM010000012.1 - Region 2 - NRPS-like,cyclic-lactone-autoinducer

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Location: 80,085 - 115,311 nt. (total: 35,227 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)
cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Ligases: ligase

I2A62_RS10325: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

I2A62_RS10345: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.53	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.52	NRPS	enniatin	Fusarium equiseti
BGC0001261.3	0.52	NRPS	AM-toxin	Alternaria alternata
BGC0001250.4	0.51	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.51	NRPS	epichloenin A	Epichloe festucae
BGC0001166.5	0.51	NRPS	HC-toxin	Alternaria jesenskae
BGC0001758.4	0.50	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001641.4	0.50	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.50	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002075.3	0.49	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002135.2	0.60	NRPS	bovienimide A	Xenorhabdus bovienii SS-2004
BGC0000342.4	0.60	NRPS	enniatin	Fusarium equiseti
BGC0001261.3	0.59	NRPS	AM-toxin	Alternaria alternata
BGC0001250.4	0.59	NRPS	epichloenin A	Epichloe festucae
BGC0001251.4	0.59	NRPS	epichloenin A	Epichloe festucae
BGC0001166.5	0.59	NRPS	HC-toxin	Alternaria jesenskae
BGC0001758.4	0.59	NRPS	rhizomide A, rhizomide B, rhizomide C	Paraburkholderia rhizoxinica HKI 454
BGC0001641.4	0.59	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.58	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002075.3	0.58	NRPS	pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E	Pseudomonas fluorescens

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 25.52 out of 28.14

Confidence: medium

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.30 out of 28.19

Confidence: medium

AfsR

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

Confidence: medium

Additional weak hits (6):

ColR

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

Confidence: weak

OsdR

Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 17.04 out of 30.12

Confidence: weak

CelR

Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 19.72 out of 30.11

Confidence: weak

ArgR

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

Confidence: weak

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.31 out of 25.88

Confidence: weak

FuR variant 1

Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.80 out of 29.38

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 80084 - 115311:

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

Polymer prediction:: (Gly)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

I2A62_RS10325: Gly

Search NORINE for peptide: strict or relaxed

AMP-binding (9..389): Gly

nrpys: Gly

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: FGLTFDIFVLEYQMLVGGEYNMYGPTEATVWCFI
Nearest Stachelhaus code(s):: Gly DILQLGMVWK (68% 8Å match)
Stachelhaus code match:: 100% (strong)

I2A62_RS10345: X

AMP-binding (8..379): X

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

SVM prediction details:

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

Stachelhaus prediction details:

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

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AfsR	Pleiotropic regulatory for antibiotic production
PerR	Peroxide regulator
ZuR variant 1	Zinc-responsive repressor

NZ_JADNBM010000019.1 - Region 1 - ranthipeptide

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Location: 12,728 - 34,173 nt. (total: 21,446 nt) Show pHMM detection rules used

ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or (YcaO or TIGR03604))))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Hydrolases: hydrolase

I2A62_RS12905: HAD-superfamily hydrolase, subfamily IA, variant

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

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.58	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000551.5	0.41	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000504.5	0.40	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000616.4	0.40	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0002260.3	0.40	terpene	trichobrasilenol, xylarenic acid B, brasilane A, brasilane F, brasilane E, brasilane D	Annulohypoxylon truncatum
BGC0002698.2	0.40	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000489.3	0.39	ribosomal	enterocin AS-48	Enterococcus faecalis
BGC0001864.3	0.39	ribosomal	listeriocytocin	Listeria monocytogenes SLCC2540
BGC0000188.5	0.38	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.58	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0000551.5	0.41	ribosomal	SapB	Streptomyces coelicolor A3(2)
BGC0000504.5	0.40	ribosomal	cytolysin ClyLl, cytolysin ClyLs	Plasmid pAD1
BGC0000616.4	0.40	ribosomal	amylocyclicin	Bacillus velezensis FZB42
BGC0002260.3	0.40	terpene	trichobrasilenol, xylarenic acid B, brasilane A, brasilane F, brasilane E, brasilane D	Annulohypoxylon truncatum
BGC0002698.2	0.40	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0001928.2	0.39	other (other)	(2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid	Streptomyces sp. MA37
BGC0000489.3	0.39	ribosomal	enterocin AS-48	Enterococcus faecalis
BGC0001864.3	0.39	ribosomal	listeriocytocin	Listeria monocytogenes SLCC2540
BGC0000188.5	0.38	other (other)	saxitoxin, neosaxitoxin, decarbamoylsaxitoxin, gonyautoxin 3, gonyautoxin 2	Cylindrospermopsis raciborskii T3

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: 17.31 out of 18.46

Confidence: strong

RpoN

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

Confidence: strong

Additional weak hits (3):

NuR

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

Confidence: weak

PerR

Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.49 out of 28.14

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 23.70 out of 33.14

Confidence: weak

RREFinder

TFBS Finder

RRE predictions

: RRE type: Other_Sactipeptide_rSAM_RRE; Location: 2 - 116; Score: 52.0

TFBS definitions

Regulator	Description
RpoN	Regulator of nitrogen assimilation and virulence

NZ_JADNBM010000025.1 - Region 1 - lanthipeptide-class-ii

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Location: 1 - 13,819 nt. (total: 13,819 nt) Show pHMM detection rules used

Region on contig edge.

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

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Lanthipeptides

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Lyases: cyclase

I2A62_RS14150: lanthionine synthetase C family protein

smcogs: SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000525.5	0.44	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0002698.2	0.43	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0002306.2	0.42	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0001210.5	0.40	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000626.3	0.39	ribosomal	thuricin	Bacillus thuringiensis
BGC0000517.4	0.38	ribosomal	haloduracin β, haloduracin α	Bacillus halodurans C-125
BGC0000516.4	0.38	ribosomal	geobacillin II	Geobacillus thermodenitrificans
BGC0000496.5	0.37	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001787.3	0.37	ribosomal	suicin 3908	Streptococcus suis

Reference	Similarity score	Type	Compound(s)	Organism
BGC0000554.4	0.48	ribosomal	SRO15-3108	Streptomyces filamentosus NRRL 15998
BGC0000525.5	0.44	ribosomal	lichenicidin VK21 A1, lichenicidin VK21 A2	Bacillus licheniformis
BGC0002698.2	0.43	ribosomal	phaeornamide	Pseudophaeobacter arcticus DSM 23566
BGC0002306.2	0.42	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0001210.5	0.40	ribosomal	pseudomycoicidin	Bacillus pseudomycoides DSM 12442
BGC0000626.3	0.39	ribosomal	thuricin	Bacillus thuringiensis
BGC0000517.4	0.38	ribosomal	haloduracin β, haloduracin α	Bacillus halodurans C-125
BGC0000516.4	0.38	ribosomal	geobacillin II	Geobacillus thermodenitrificans
BGC0000496.5	0.37	ribosomal	AmfS	Streptomyces griseus subsp. griseus NBRC 13350
BGC0001787.3	0.37	ribosomal	suicin 3908	Streptococcus suis

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Lanthipeptide predictions

Lanthipeptide(s) for I2A62_RS14150

I2A62_RS14145

Leader:

MKENKNLEFA

Core:

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

Core with dehydrations:

GDLLVEMQEVQKINCysDhaDNVVDRGRDhbYDhbLQCysDhbAFLDhbIFCysCys

antiSMASH-DB 4.0 matches for I2A62_RS14145

100.0%

NZ_JADNBM010000025.1and 2 others:

NZ_JAQDZW010000013.1 Lanthipeptides: PGT55_RS13345_lanthipeptideNZ_QVMC01000003.1 Lanthipeptides: DWV46_RS15805_lanthipeptide

Lanthipeptides: I2A62_RS14145_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

59.0%

NZ_CP094681.1:

Lanthipeptides: K5I26_RS05295_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

GDL+ E+QE QK+ C D ++RGRT T C FLTIFCC

1

GDLMAEVQEAQKVCCPDKGIERGRTTTSDCALFLTIFCC

39

48.7%

NZ_CYZG01000001.1:

Lanthipeptides: ARA00_RS15445_lanthipeptide

2

DLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

+LL EMQE+QKI D + ++T+ C AFLTI+CC

1

NLLEEMQEIQKIIPEDQENELVSSHTVGCGAFLTIYCC

38

with 28 more sequence matches

Only the first 10 are displayed here.

46.2%

NZ_CP045695.1:

Lanthipeptides: allorf_0915160_0915312_lanthipeptide

2

DLLVEMQEVQK-INCSDNVVDRGRTYTLQCTAFLTIFCC

39

DL VE+ EV K ++ S+ + T+T+QCT F TI+CC

1

DLCVELTEVDKMLDESERIEQNSNTHTIQCTQFFTIYCC

39

43.6%

NZ_KQ236748.1:

Lanthipeptides: HMPREF0980_RS19040_lanthipeptide

2

DLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

DLL E +EVQ + ++ V T+TL C+ F TI CC

1

DLLQEFEEVQTL-VNEEVGVPYSTWTLACSQFCTIICC

37

38.5%

NZ_JAOQJV010000004.1:

Lanthipeptides: OCV65_RS05205_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

GD+L E+QE + V T + C+ FLTI CC

1

GDILKELQEYNMLMDEAEQVVVYATQSGNCSGFLTIICC

39

38.5%

NZ_LT969517.1and 1 other:

NZ_QVLV01000012.1 Lanthipeptides: DXC51_RS29565_lanthipeptide

Lanthipeptides: C1733_RS32195_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

GDL E++E +K+ D T + T FL+IFCC

4

GDLFYEVKENEKMEL-DGFEAPAVTAS---TGFLSIFCC

38

38.5%

NZ_QGDL01000005.1:

Lanthipeptides: A8806_RS26140_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

GDL E+ EV KI + +++ T T+ C+ TI+CC

1

GDLFQEVDEVSKIISDIDRIEQIFTNTVGCSNLFTIYCC

39

31.7%

NZ_CP079946.1:

Lanthipeptides: KYK13_RS20175_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

G + V +K N+V T CTA T FCC

5

GPVFVGGTSTEKALTESNLV--ADTGCSSCTASTTAFCC

41

30.8%

NZ_MCGI01000004.1and 1 other:

NZ_MPDJ01000004.1 Lanthipeptides: BLA28_RS33805_lanthipeptide

Lanthipeptides: BEH84_RS33640_lanthipeptide

2

DLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

++L E++E K + N + + T FL+IFCC

1

NVLFEVEESGKEMMNSNQIPANT----ESTPFLSIFCC

34

29.3%

NZ_CP114039.1:

Lanthipeptides: O0N60_RS29095_lanthipeptide

1

GDLLVEMQEVQKINCSDNVVDRGRTYTLQCTAFLTIFCC

39

G + V Q ++ N+V+ T C+A T FCC

5

GPVFVGGQRTEQALTESNLVEN--TGCSSCSASTTGFCC

41

28.2%

NZ_JVCZ01000028.1:

Lanthipeptides: ADG88_RS11420_lanthipeptide

17

DNVVDRGRTYTLQCTAFLTIFCC

39

+N RG T T +C FLT CC

12

ENSCGRGCTITTEC-PFLTFICC

33

27.9%

NZ_QORY01000016.1and 1 other:

NZ_QORY01000016.1 Lanthipeptides: DT250_RS18255_lanthipeptide

Lanthipeptides: DT250_RS18255_lanthipeptide

3

LLVEMQEVQKINCSDNVVDRGR--TYTLQCTA

32

L++++ + KI + ++GR TYTL+CTA

8

LIIDIDRMSKI-----LGNKGRICTYTLECTA

34

MIBiG 4.0 matches for I2A62_RS14145

10.3%

BGC0000563.4 (AEA03263.1):

Lanthipeptide: venezuelin

27

TLQCTAFLTIF

37

T +C LT+

2

TCECVGLLTLL

12

allorf_12785_12913

Leader:

MGRIRDSYSYHNLAEFLTEFFLSPVSGA

Core:

SFFCYNNTGKGGKQ

Core with dehydrations:

DhaFFCysYNNDhbGKGGKQ

antiSMASH-DB 4.0 matches for allorf_12785_12913

100.0%

NZ_CP094681.1and 3 others:

NZ_JADNBM010000025.1 Lanthipeptides: allorf_12785_12913_lanthipeptideNZ_JAQDZW010000013.1 Lanthipeptides: allorf_048148_048276_lanthipeptideNZ_QVMC01000003.1 Lanthipeptides: allorf_247675_247803_lanthipeptide

Lanthipeptides: allorf_1123528_1123656_lanthipeptide

1

SFFCYNNTGKGGKQ

14

SFFCYNNTGKGGKQ

1

SFFCYNNTGKGGKQ

14

41.2%

NZ_ALVU02000002.1and 1 other:

NZ_ALVU02000002.1 Lanthipeptides: SYN7509_RS27840_lanthipeptide

Lanthipeptides: SYN7509_RS27840_lanthipeptide

5

YNNTGKGG

12

YNNTG GG

2

YNNTGDGG

9

21.4%

NZ_JAQEUQ010000016.1:

Lanthipeptides: PG724_RS05370_lanthipeptide

1

SFFCYNNTGKG

11

S FC+N GK

5

SVFCFNKHGKS

15

with 1 more sequence matches

17.1%

NC_005071.1:

Lanthipeptides: allorf_0285343_0285471_lanthipeptide

2

FFCYNNTGKGGKQ

14

FFC N GG++

18

FFCINILSPGGQE

30

MIBiG 4.0 matches for allorf_12785_12913

21.1%

BGC0000503.5 (cinA):

Lanthipeptide: cinnamycin

1

SFFCYNNT

8

+F C NT

11

TFVCDGNT

18

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Transcription Factor Binding Sites

Binding sites found:

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.74 out of 25.88

Confidence: medium

CcpA

Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.02 out of 20.97

Confidence: medium

ArgR

Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 19.68 out of 20.01

Confidence: strong

Additional weak hits (2):

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 25.96 out of 36.54

Confidence: weak

LuxO

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

Confidence: weak

Lanthipeptides

TFBS Finder

Core peptide predictions

I2A62_RS14145 - Class II

Cleavage pHMM score: -2.20

RODEO score: 0

Monoisotopic mass: 4335.1 Da

Molecular weight: 4338.0 Da

Number of bridges: 4

Alternative weights: (assuming N unmodified Ser/Thr residues); 4356.0 Da N = 1

allorf_12785_12913 - Class II

Cleavage pHMM score: -4.00

RODEO score: 0

Monoisotopic mass: 1513.7 Da

Molecular weight: 1514.7 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 1532.7 Da N = 1

TFBS definitions

Regulator	Description
ArgR	Regulator of arginine biosynthesis genes
CcpA	Catabolite control protein A
PsrA	Oleic acid responsive regulator

NZ_JADNBM010000002.1 - Region 1 - terpene-precursor

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Location: 130,915 - 151,814 nt. (total: 20,900 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

reset view

zoom to selection

Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

Terpene

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Transferases: glycosyltransferase

I2A62_RS02995: glycosyl transferase group 1

smcogs: SMCOG1045: glycosyl transferase group 1

Hydrolases: back translocase

I2A62_RS02930: GTP-binding protein LepA

smcogs: SMCOG1190: GTP-binding protein LepA

Ligases: synthase synthetase

I2A62_RS02955: Polyprenyl synthetase

smcogs: SMCOG1182: Polyprenyl synthetase

I2A62_RS02960: 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
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0000665.5	0.39	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002398.2	0.38	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0001594.3	0.38	other (other)	fischerindole L	Fischerella muscicola UTEX 1829
BGC0000663.5	0.38	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0001605.3	0.38	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0000666.5	0.37	terpene	xiamycin A	Streptomyces sp. SCSIO 02999

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002283.2	0.49	terpene	sodorifen	Serratia plymuthica
BGC0001361.3	0.49	terpene	sodorifen	Serratia plymuthica 4Rx13
BGC0002397.2	0.47	terpene	astallatene	Arabidopsis thaliana
BGC0002400.2	0.44	terpene	boleracene	Brassica oleracea var. oleracea
BGC0000665.5	0.39	other (other), terpene	xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C	Streptomyces sp. HKI0576
BGC0002398.2	0.38	terpene	(-)-ent-quiannulatene	Arabidopsis thaliana
BGC0001594.3	0.38	other (other)	fischerindole L	Fischerella muscicola UTEX 1829
BGC0000663.5	0.38	terpene	hopene	Streptomyces coelicolor A3(2)
BGC0001605.3	0.38	terpene	gibberellin	Sinorhizobium fredii NGR234
BGC0000666.5	0.37	terpene	xiamycin A	Streptomyces sp. SCSIO 02999

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:

I2A62_RS02955: PT_FPPS_like

Domain 1 (34 - 298): Prenyltransferase; Farnesyl diphosphate synthase like

Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:: DMAPP, IPP → FPP

Transcription Factor Binding Sites

Binding sites found:

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.50 out of 27.78

Confidence: medium

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.50 out of 27.78

Confidence: medium

CRP

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

Confidence: strong

IolR

Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.75 out of 23.79

Confidence: strong

ToxT

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

Confidence: strong

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 25.41 out of 28.19

Confidence: strong

ZuR variant 1

Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.27 out of 28.19

Confidence: medium

Additional weak hits (4):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.26 out of 26.06

Confidence: weak

CopR

Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 22.79 out of 30.97

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 23.59 out of 36.54

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 21.89 out of 33.14

Confidence: weak

Terpene

TFBS Finder

Glossary

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

TFBS definitions

Regulator	Description
CRP	Cyclic AMP receptor protein
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
IolR	Regulator of the inositol catabolism
ToxT	Regulator of MSHA biosynthesis
ZuR variant 1	Zinc-responsive repressor

NZ_JADNBM010000009.1 - Region 1 - ranthipeptide

Download region GenBank file

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Location: 82,721 - 104,372 nt. (total: 21,652 nt) Show pHMM detection rules used

ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or (YcaO or TIGR03604))))

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Hydrolases: hydrolase

I2A62_RS08510: metallo-beta-lactamase family protein

smcogs: SMCOG1170: metallo-beta-lactamase family protein

I2A62_RS08580: HAD-superfamily hydrolase, subfamily IA, variant

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

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.52	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0002507.3	0.34	PKS	sporandol	Chrysosporium merdarium
BGC0000842.5	0.34	other (non-nrp beta-lactam)	carbapenem MM4550	Streptomyces argenteolus
BGC0000613.5	0.32	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39
BGC0001607.5	0.32	other (other)	gilvusmycin	Streptomyces sp. NRRL B-1347
BGC0001591.4	0.31	other (other)	fatty acid enol ester, N-tetradecanoyl tyrosine	uncultured bacterium CSLC2
BGC0001540.5	0.30	other (other)	CC-1065	Streptomyces zelensis
BGC0001155.5	0.30	ribosomal	GE2270	Planobispora rosea
BGC0000604.4	0.30	ribosomal	GE2270A	Nonomuraea sp. WU8817
BGC0002713.2	0.30	NRPS	mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D	Photorhabdus laumondii subsp. laumondii

Reference	Similarity score	Type	Compound(s)	Organism
BGC0002306.2	0.52	ribosomal	freyrasin	Paenibacillus polymyxa ATCC 842
BGC0002507.3	0.34	PKS	sporandol	Chrysosporium merdarium
BGC0000842.5	0.34	other (non-nrp beta-lactam)	carbapenem MM4550	Streptomyces argenteolus
BGC0000613.5	0.32	ribosomal	thiomuracin A	Nonomuraea sp. Bp3714-39
BGC0001607.5	0.32	other (other)	gilvusmycin	Streptomyces sp. NRRL B-1347
BGC0001591.4	0.31	other (other)	fatty acid enol ester, N-tetradecanoyl tyrosine	uncultured bacterium CSLC2
BGC0001540.5	0.30	other (other)	CC-1065	Streptomyces zelensis
BGC0001155.5	0.30	ribosomal	GE2270	Planobispora rosea
BGC0000604.4	0.30	ribosomal	GE2270A	Nonomuraea sp. WU8817
BGC0002713.2	0.30	NRPS	mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D	Photorhabdus laumondii subsp. laumondii

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.95 out of 27.78

Confidence: medium

GnfM

Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.35 out of 27.55

Confidence: medium

Additional weak hits (2):

MogR

Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.06 out of 26.06

Confidence: weak

HgtR

Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 23.24 out of 36.54

Confidence: weak

RREFinder

TFBS Finder

RRE predictions

: RRE type: Ranthipeptide_rSAM_RRE; Location: 0 - 111; Score: 96.8

TFBS definitions

Regulator	Description
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
GnfM	Regulator of nitrogen-fixation genes

NZ_JADNBM010000009.1 - Region 2 - NRPS

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Location: 111,331 - 141,009 nt. (total: 29,679 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

binding site

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Gene details

Select a gene to view the details available for it

Gene overview

Tailoring

MIBiG comparison

KnownClusterBlast

SubClusterBlast

TFBS Finder

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

Filter:

Automatically zoom to filtered/selected features

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

Tailoring functions

Hydrolases: esterase hydrolase

I2A62_RS08675: thioesterase

smcogs: SMCOG1004: thioesterase

I2A62_RS08710: beta-lactamase

smcogs: SMCOG1053: beta-lactamase

Ligases: ligase

I2A62_RS08700: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

I2A62_RS08705: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001128.4	0.66	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.66	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.66	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.65	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.65	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002274.2	0.63	NRPS	aspulvinone H, aspulvinone B1	Aspergillus terreus NIH2624
BGC0001251.4	0.62	NRPS	epichloenin A	Epichloe festucae
BGC0001250.4	0.62	NRPS	epichloenin A	Epichloe festucae
BGC0002174.2	0.59	NRPS	ε-Poly-L-lysine	Epichloe festucae

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001261.3	0.66	NRPS	AM-toxin	Alternaria alternata
BGC0001128.4	0.66	NRPS	gamexpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.66	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0001825.4	0.66	NRPS	xenematide	Xenorhabdus nematophila AN6/1
BGC0002286.3	0.65	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5	0.65	NRPS	bicornutin A1, bicornutin A2	Xenorhabdus budapestensis
BGC0002274.2	0.63	NRPS	aspulvinone H, aspulvinone B1	Aspergillus terreus NIH2624
BGC0001251.4	0.62	NRPS	epichloenin A	Epichloe festucae
BGC0001250.4	0.62	NRPS	epichloenin A	Epichloe festucae
BGC0002174.2	0.59	NRPS	ε-Poly-L-lysine	Epichloe festucae

Similar known clusters from MIBiG 4.0

No significant matches found.

Similar subclusters

No significant matches found.

Transcription Factor Binding Sites

Binding sites found:

AbrC3

Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 17.14 out of 18.16

Confidence: strong

CodY

Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.57 out of 27.78

Confidence: medium

PsrA

Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.90 out of 25.88

Confidence: medium

CatR

Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 23.25 out of 25.31

Confidence: strong

LexA variant 3

Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.20 out of 32.93

Confidence: medium

Additional weak hits (2):

NuR

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

Confidence: weak

ZuR variant 2

Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.30 out of 33.14

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 111330 - 141009:

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

Polymer prediction:: (Asn)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

I2A62_RS08700: X

AMP-binding (28..463): X

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

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: DSALYEMTC-DLIKVCGGSVHGYGITECSPLLSA
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

I2A62_RS08705: Asn

Search NORINE for peptide: strict or relaxed

AMP-binding (463..861): Asn

nrpys: Asn

SVM prediction details:

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

Stachelhaus prediction details:

Stachelhaus sequence:: YWATFDLTITSTKMIVGGEYNEYGPSEAVVGCMI
Nearest Stachelhaus code(s):: Asn DLTKIGEVGK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor

TFBS definitions

Regulator	Description
AbrC3	Antibiotic production activator
CatR	H2O2-responsive repressor
CodY	Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 3	Repressor of DNA damage response
PsrA	Oleic acid responsive regulator