Select genomic region:
Overview
1.1
9.1
10.1
13.1
13.2
24.1
31.1

### Identified secondary metabolite regions using strictness 'relaxed'

NZ_PIJH01000001.1 (Geobacillus thermodenitrificans)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene-precursor | 243,992 | 264,885 |  |

NZ_PIJH01000017.1 (Geobacillus thermodenitrificans)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 9.1 | terpene | 1,037 | 20,862 |

NZ_PIJH01000018.1 (Geobacillus thermodenitrificans)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 10.1 | lanthipeptide-class-ii,terpene-precursor | 7,622 | 25,471 | High | geobacillin II | ribosomal:RiPP:Lanthipeptide

NZ_PIJH01000003.1 (Geobacillus thermodenitrificans)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 13.1 | T3PKS | 180,469 | 221,536 |
Region 13.2 | betalactone | 227,338 | 251,642 | Low | fengycin | NRPS:Type I

NZ_PIJH01000004.1 (Geobacillus thermodenitrificans)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 24.1 | lanthipeptide-class-i | 153,824 | 180,236 | High | geobacillin I | ribosomal:RiPP:Lanthipeptide

NZ_PIJH01000010.1 (Geobacillus thermodenitrificans)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 31.1 | NRP-metallophore,NRPS | 40,579 | 86,526 | High | bacillibactin/bacillibactin E/bacillibactin F | NRPS:Type I

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | terpene-precursor | 243,992 | 264,885 |  |
Region 9.1 | terpene | 1,037 | 20,862 |
Region 10.1 | lanthipeptide-class-ii,terpene-precursor | 7,622 | 25,471 | High | geobacillin II | ribosomal:RiPP:Lanthipeptide
Region 13.1 | T3PKS | 180,469 | 221,536 |
Region 13.2 | betalactone | 227,338 | 251,642 | Low | fengycin | NRPS:Type I
Region 24.1 | lanthipeptide-class-i | 153,824 | 180,236 | High | geobacillin I | ribosomal:RiPP:Lanthipeptide
Region 31.1 | NRP-metallophore,NRPS | 40,579 | 86,526 | High | bacillibactin/bacillibactin E/bacillibactin F | NRPS:Type I

No secondary metabolite regions were found in these records:
  NZ_PIJH01000002.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000011.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000012.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000013.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000014.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000015.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000016.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000019.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000020.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000021.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000022.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000023.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000024.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000025.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000026.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000027.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000028.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000029.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000030.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000031.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000005.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000006.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000007.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000008.1 (Geobacillus thermodenitrificans)
  NZ_PIJH01000009.1 (Geobacillus thermodenitrificans)

Compact view
NZ_PIJH01000001.1 - Region 1 - terpene-precursor
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 243,992 - 264,885 nt. (total: 20,894 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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: carboxylase
CV632_RS01405: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Ligases: synthase synthetase
CV632_RS01370: 1-deoxy-D-xylulose-5-phosphate synthase

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

CV632_RS01375: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | terpene-precursor | 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
BGC0002219.2 |  | 0.39 | terpene | (-)-(R)-nephthenol | Stereum hirsutum FP-91666 SS1
BGC0000665.5 |  | 0.38 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002284.3 |  | 0.38 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000641.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC416

Reference | Aggregated | 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
BGC0002219.2 |  | 0.39 | terpene | (-)-(R)-nephthenol | Stereum hirsutum FP-91666 SS1
BGC0000665.5 |  | 0.38 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002284.3 |  | 0.38 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000641.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC416

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
sesquiterpene precursor |  | FPP | C15 | acyclic | PP

Genes with terpene domains:
CV632_RS01375: PT_FPPS_like
Domain 1 (34 - 297): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:
  IPP, DMAPP → FPP

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 23.37 out of 24.78
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.34 out of 26.06
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.11 out of 24.78
Confidence: medium
Additional weak hits (9):
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.03 out of 25.88
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.61 out of 30.25
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.88 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.82 out of 26.06
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.35 out of 32.74
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.73 out of 26.06
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.91 out of 30.25
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 21.31 out of 30.97
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

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

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

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

NZ_PIJH01000017.1 - Region 1 - terpene
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 1,037 - 20,862 nt. (total: 19,826 nt) Show pHMM detection rules used
Region on contig edge.
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase
CV632_RS17180: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

CV632_RS17210: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Ligases: ligase
CV632_RS17255: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001261.3 |  | 0.55 | NRPS | AM-toxin | Alternaria alternata
BGC0002173.2 |  | 0.47 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0002020.3 |  | 0.44 | NRPS, saccharide | photolose, oligosaccharide 1 (GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 2 (GlcNAc-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 3 (GlcNAc-β(1-4)-GlcNAc-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 4 (GlcN-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 5 (6-phosphoGlcN-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc) | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002474.2 |  | 0.43 | NRPS | agrobactin | Agrobacterium tumefaciens
BGC0002493.3 |  | 0.42 | NRPS | parabactin | Paracoccus denitrificans PD1222
BGC0000231.5 |  | 0.42 | PKS | griseusin A, griseusin B | Streptomyces griseus
BGC0002711.2 |  | 0.41 | PKS | nostovalerolactone, 9-dehydronostovalerolactone | Nostoc punctiforme PCC 73102
BGC0000234.5 |  | 0.41 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0000888.5 |  | 0.41 | other (other) | bacilysin | Bacillus sp. CS93
BGC0001723.5 |  | 0.40 | PKS | oviedomycin | Streptomyces antibioticus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001261.3 |  | 0.55 | NRPS | AM-toxin | Alternaria alternata
BGC0002173.2 |  | 0.47 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0002020.3 |  | 0.44 | NRPS, saccharide | photolose, oligosaccharide 1 (GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 2 (GlcNAc-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 3 (GlcNAc-β(1-4)-GlcNAc-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 4 (GlcN-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc), oligosaccharide 5 (6-phosphoGlcN-β(1-4)-GlcNAc-β(1-4)-1,6-anhydro-β-GlcNAc) | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002474.2 |  | 0.43 | NRPS | agrobactin | Agrobacterium tumefaciens
BGC0002493.3 |  | 0.42 | NRPS | parabactin | Paracoccus denitrificans PD1222
BGC0000231.5 |  | 0.42 | PKS | griseusin A, griseusin B | Streptomyces griseus
BGC0002711.2 |  | 0.41 | PKS | nostovalerolactone, 9-dehydronostovalerolactone | Nostoc punctiforme PCC 73102
BGC0000234.5 |  | 0.41 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0000888.5 |  | 0.41 | other (other) | bacilysin | Bacillus sp. CS93
BGC0001723.5 |  | 0.40 | PKS | oviedomycin | Streptomyces antibioticus

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
triterpene | hopanoid |  | C30 | hopanoid skeleton | unknown
triterpene | polypodane |  | C30 | polypodane skeleton | unknown

Genes with terpene domains:
CV632_RS17220: T2TS
Domain 1 (8 - 611): Type 2 terpene synthase
Subtype: Squalene substrate

Reactions:
  squalene → hopanoid
  squalene → polypodane

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.11 out of 27.78
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.71 out of 23.79
Confidence: medium
Additional weak hits (2):
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 20.00 out of 28.14
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 21.73 out of 31.73
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.
No acronyms to display
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
IolR | Regulator of the inositol catabolism
ToxT | Regulator of MSHA biosynthesis

NZ_PIJH01000018.1 - Region 1 - lanthipeptide-class-ii,terpene-precursor
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 7,622 - 25,471 nt. (total: 17,850 nt) Show pHMM detection rules used
Region on contig edge.
lanthipeptide-class-ii: cds(LANC_like and DUF4135)
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
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Lanthipeptides
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Lyases: cyclase
CV632_RS17350: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

Ligases: synthetase
CV632_RS17370: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | lanthipeptide-class-ii | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000516.4 |  |  | 2.00 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000554.4 |  |  | 0.46 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000504.5 |  |  | 0.42 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0001210.5 |  |  | 0.38 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000527.5 |  |  | 0.38 | ribosomal | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000547.5 |  |  | 0.33 | ribosomal | salivaricin 9 | Streptococcus salivarius
BGC0000502.5 |  |  | 0.33 | ribosomal | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0001311.5 |  |  | 0.32 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0002005.2 |  |  | 0.31 | ribosomal | RaxX | Xanthomonas oryzae pv. oryzae
BGC0000525.5 |  |  | 0.30 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000516.4 |  | 1.00 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000554.4 |  | 0.56 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000504.5 |  | 0.53 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0001210.5 |  | 0.51 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000527.5 |  | 0.51 | ribosomal | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000547.5 |  | 0.47 | ribosomal | salivaricin 9 | Streptococcus salivarius
BGC0000502.5 |  | 0.46 | ribosomal | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0002005.2 |  | 0.46 | ribosomal | RaxX | Xanthomonas oryzae pv. oryzae
BGC0001311.5 |  | 0.45 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0000525.5 |  | 0.45 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.

#### Lanthipeptide(s) for CV632_RS17350

CV632_RS18055
Leader:
MEKQEQTFVSKISEEELKKLAGG
Core:
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
Core with dehydrations:
Y Dhb E V Dha P Q Dha Dhb I V Cys V Dha L R I Cys N W Dha L R F Cys P Dha F K V K Cys P M

#### antiSMASH-DB 4.0 matches for CV632_RS18055

100.0%
NZ_PIJH01000018.1:
Lanthipeptides: CV632_RS18055_lanthipeptide
1
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
1
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
97.1%
NC_009328.1:
Lanthipeptides: GTNG_RS18990_lanthipeptide
1
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V+C P M
1
Y T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V R C P M
34
67.6%
NZ_FOHE01000009.1:
Lanthipeptides: BMX40_RS20255_lanthipeptide
3
E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
E V+P Q S T+V C V S L R+C W S+++C P S F K K C M
3
E V T P Q S T V V C V S L R L C K W S I K Y C P S F K R K C W M
34
with 21 more sequence matches
Only the first 10 are displayed here.
67.6%
NZ_JALANL010000003.1 and 3 others:
NZ_MUEI01000003.1 Lanthipeptides: BV582_RS23575_lanthipeptide NZ_NIJN01000002.1 Lanthipeptides: CHCC5027_RS22460_lanthipeptide NZ_NIMF01000037.1 Lanthipeptides: CHCC14814_RS22115_lanthipeptide
Lanthipeptides: MOC63_RS03255_lanthipeptide
3
E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
E++P Q S T+V C V S L R I C W S+++C P S F K K C M
3
E I T P Q S T V V C V S L R I C K W S I K Y C P S F K R K C W M
34
64.7%
NZ_CP023481.1 and 2 others:
NZ_JALARN010000006.1 Lanthipeptides: MOE03_RS17410_lanthipeptide NZ_JAQCPU010000013.1 Lanthipeptides: PG077_RS20425_lanthipeptide
Lanthipeptides: COP00_RS24795_lanthipeptide
3
E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
E++P Q S T+V C V S L R+C W S+++C P S F K K C M
3
E I T P Q S T V V C V S L R V C K W S I K Y C P S F K R K C W M
34
64.7%
NZ_JALAJI010000006.1 and 3 others:
NZ_JALAOO010000008.1 Lanthipeptides: MOC69_RS16910_lanthipeptide NZ_JALAXE010000008.1 Lanthipeptides: MOF11_RS14910_lanthipeptide NZ_JALAXI010000013.1 Lanthipeptides: MOE73_RS14185_lanthipeptide
Lanthipeptides: MOB90_RS08905_lanthipeptide
3
E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C P M
34
E++P Q S T+V C V S L R+C W S+++C P S F K K C M
3
E I T P Q S T V V C V S L R L C K W S I K Y C P S F K K K C L M
34
42.9%
NZ_CP039297.1 and 4 others:
NZ_CP040378.1 Lanthipeptides: D1120_RS00435_lanthipeptide NZ_CP040672.1 Lanthipeptides: FGE23_RS05605_lanthipeptide NZ_CP059318.1 Lanthipeptides: HZT45_RS00565_lanthipeptide NZ_CP087137.1 Lanthipeptides: LOK79_RS00585_lanthipeptide
Lanthipeptides: E4T61_RS00570_lanthipeptide
2
T E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C
32
T V S P T+V +R+ S L+ C P+F K+K C
9
T P V S P A P T V V---I R V---S L K V C P T F K I K C
33
41.7%
NZ_CP034118.1 and 1 other:
NZ_CP034118.1 Lanthipeptides: EG886_RS06300_lanthipeptide
Lanthipeptides: EG886_RS06300_lanthipeptide
3
E V S P Q S T I V C-V S L R I C-N W S L R F C P S
27
E V P Q S V C V+L +C S L F C P+
2
E V R P Q S G P V C A V T L A V C V P V S L A F C P T
28
32.4%
NZ_WIXN01000006.1 and 1 other:
NZ_WIXN01000006.1 Lanthipeptides: GHD25_RS06900_lanthipeptide
Lanthipeptides: GHD25_RS06900_lanthipeptide
8
S T I V C V S L R I C N W S L R F C P S F K V K C P
33
+T I+ V S L +C + C S F C P
10
T T I I P V S L A V C P T T T--C R S F S S P C P
33
29.4%
NC_018499.1 and 5 others:
NC_018499.1 Lanthipeptides: BCK_RS27840_lanthipeptide NC_018499.1 Lanthipeptides: BCK_RS27835_lanthipeptide NC_018499.1 Lanthipeptides: BCK_RS27845_lanthipeptide NC_018499.1 Lanthipeptides: BCK_RS27840_lanthipeptide NC_018499.1 Lanthipeptides: BCK_RS27835_lanthipeptide
Lanthipeptides: BCK_RS27845_lanthipeptide
3
E V S P Q S-T I V C V S L R I C
18
E +P + T I V V S L I C
6
E T T P A T P T I V A V S L G I C
22
29.4%
NZ_CP102973.1 and 1 other:
NZ_FQQG01000014.1 Lanthipeptides: BT790_RS14420_lanthipeptide
Lanthipeptides: NW963_RS14100_lanthipeptide
3
E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C
32
+V+P+S T V C + S++ + K K C
2
D V T P E S T T V C A A F A S F A G S I Q L V K T L K S K C
31
26.5%
NZ_JQBU01000033.1 and 1 other:
NZ_JQBV01000009.1 Lanthipeptides: IV76_RS12120_lanthipeptide
Lanthipeptides: IV75_RS14620_lanthipeptide
3
E V S P Q S T I V C V S L R I C N W S L R F C P S F K V K C
32
+V P+S T +C S+ + K K C
2
D V M P E S T P I C A G F A T L M S S I G L V K T I K G K C
31
23.5%
NZ_CP067069.1 and 13 others:
NZ_CP085413.1 Lanthipeptides: LIS80_RS25350_lanthipeptide NZ_JH792105.1 Lanthipeptides: II5_RS26960_lanthipeptide NZ_JH792240.1 Lanthipeptides: IIK_RS26240_lanthipeptide NZ_MOOT01000061.1 Lanthipeptides: BK765_RS23985_lanthipeptide NZ_NTUF01000024.1 Lanthipeptides: CN379_RS26680_lanthipeptide NZ_NVCZ01000001.1 Lanthipeptides: COK75_RS01180_lanthipeptide NZ_NVDK01000008.1 Lanthipeptides: COK95_RS05665_lanthipeptide NZ_NVEA01000001.1 Lanthipeptides: COL15_RS00010_lanthipeptide NZ_PIYQ01000022.1 Lanthipeptides: CW365_RS08190_lanthipeptide NZ_WBOZ01000055.1 Lanthipeptides: F8156_RS20675_lanthipeptide NZ_WBPC01000027.1 Lanthipeptides: F8159_RS19560_lanthipeptide NZ_WBPE01000025.1 Lanthipeptides: F8161_RS14435_lanthipeptide NZ_WBPK01000016.1 Lanthipeptides: F8167_RS15685_lanthipeptide
Lanthipeptides: JCR32_RS24620_lanthipeptide
2
T E V S P Q S T I V C V S L R I-C N W S L R F C
25
++V P++T +C V + I S++ C
1
S D V Q P E T T P L C V G V I I G I T A S I K I C
25

#### MIBiG 4.0 matches for CV632_RS18055

14.7%
BGC0000553.3 (SSGG_RS09925):
Lanthipeptide: SRO15-2212
13
V S L R I C N W S
21
V S L +C +S
5
V S L L V C E Y S
13
14.7%
BGC0001155.5 (AGY49587.1):
Thiopeptide: GE2270
18
C N W S L R F C P S
27
C N F C S
2
C N C V C G F C C S
11
allorf_25318_25410
Leader:
MSIYQVQLVVKSQKTHSSPFS
Core:
A T S T N P K I C
Core with dehydrations:
A Dhb Dha Dhb N P K I Cys

#### antiSMASH-DB 4.0 matches for allorf_25318_25410

100.0%
NC_009328.1 and 1 other:
NZ_PIJH01000018.1 Lanthipeptides: allorf_25318_25410_lanthipeptide
Lanthipeptides: allorf_2195161_2195337_lanthipeptide
1
A T S T N P K I C
9
A T S T N P K I C
1
A T S T N P K I C
9
9.7%
NZ_CP017599.1:
Lanthipeptides: BJP34_RS00845_lanthipeptide
2
T S T N P K I C
9
T S T N +I C
2
T S T N D E I C
9

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | 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:
CV632_RS17370: PT_FPPS_like
Domain 1 (52 - 301): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: unknown

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

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 18.15 out of 18.46
Confidence: strong
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.71 out of 26.33
Confidence: medium
Additional weak hits (3):
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.06 out of 39.62
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 18.17 out of 30.12
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 18.45 out of 30.12
Confidence: weak
Lanthipeptides
Terpene
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.

CV632_RS18055 - Class II
  Cleavage pHMM score: 2.00
  RODEO score: 0
  Monoisotopic mass: 3794.9 Da
  Molecular weight: 3797.5 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3815.5 Da N = 1
    3833.6 Da N = 2
    3851.6 Da N = 3
allorf_25318_25410 - Class II
  Cleavage pHMM score: -7.30
  RODEO score: 0
  Monoisotopic mass: 879.5 Da
  Molecular weight: 880.0 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    898.0 Da N = 1
    916.0 Da N = 2

Glossary
Glossary showing acronyms and their full names.

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
Shows descriptions for Transcription Factor Binding Site models

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

NZ_PIJH01000003.1 - Region 1 - T3PKS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 180,469 - 221,536 nt. (total: 41,068 nt) Show pHMM detection rules used
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: methyltransferase
CV632_RS08520: isoprenylcysteine carboxyl methyltransferase

smcogs
  SMCOG1150: isoprenylcysteine carboxyl methyltransferase

Hydrolases: esterase
CV632_RS08575: thioesterase superfamily protein

smcogs
  SMCOG1144: thioesterase superfamily protein

Ligases: synthase
CV632_RS08515: chalcone and stilbene synthase domain protein

smcogs
  SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000282.3 |  | 0.55 | 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
BGC0001831.3 |  | 0.54 | PKS | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0002127.3 |  | 0.51 | PKS | flaviolin, 1,3,6,8-tetrahydroxynaphthalene | Streptomyces coelicolor A3(2)
BGC0001238.3 |  | 0.51 | other (other) | biotin | Aspergillus nidulans
BGC0001962.3 |  | 0.50 | PKS | hierridin B, hierridin C | Cyanobium sp. LEGE 06113
BGC0001239.3 |  | 0.49 | other (other) | biotin | Aspergillus nidulans
BGC0000902.4 |  | 0.49 | PKS | flaviolin | Saccharopolyspora erythraea NRRL 2338
BGC0002403.2 |  | 0.48 | PKS | β-Diketones | Hordeum vulgare subsp. vulgare
BGC0000285.5 |  | 0.44 | PKS, saccharide | flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin | Saccharopolyspora erythraea
BGC0002332.2 |  | 0.44 | PKS | 4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A | Candidatus Entotheonella sp.

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000282.3 |  | 0.55 | 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
BGC0001831.3 |  | 0.54 | PKS | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0002127.3 |  | 0.51 | PKS | flaviolin, 1,3,6,8-tetrahydroxynaphthalene | Streptomyces coelicolor A3(2)
BGC0001238.3 |  | 0.51 | other (other) | biotin | Aspergillus nidulans
BGC0001962.3 |  | 0.50 | PKS | hierridin B, hierridin C | Cyanobium sp. LEGE 06113
BGC0001239.3 |  | 0.49 | other (other) | biotin | Aspergillus nidulans
BGC0000902.4 |  | 0.49 | PKS | flaviolin | Saccharopolyspora erythraea NRRL 2338
BGC0002403.2 |  | 0.48 | PKS | β-Diketones | Hordeum vulgare subsp. vulgare
BGC0000285.5 |  | 0.44 | PKS, saccharide | flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin | Saccharopolyspora erythraea
BGC0002332.2 |  | 0.44 | PKS | 4-hydroxy-6-pentadecylpyran-2-one, 4-hydroxy-6-(2-oxoheptadecyl)pyran-2-one, Adipostatin A | Candidatus Entotheonella sp.

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.75 out of 18.57
Confidence: strong
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.48 out of 20.97
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.15 out of 27.78
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.25 out of 20.97
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.40 out of 19.26
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.77 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.00 out of 27.78
Confidence: medium
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 20.10 out of 21.84
Confidence: medium
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 26.86 out of 30.98
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.18 out of 32.93
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 17.71 out of 18.16
Confidence: strong
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.07 out of 18.16
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.21 out of 26.06
Confidence: medium
Additional weak hits (14):
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.60 out of 32.74
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.60 out of 26.06
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.05 out of 30.25
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.81 out of 30.25
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.83 out of 29.38
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.52 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.99 out of 26.06
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.88 out of 20.01
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.61 out of 29.38
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.60 out of 26.12
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.19 out of 26.06
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 22.53 out of 36.54
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.65 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.13 out of 26.06
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CRP | Cyclic AMP receptor protein
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 3 | Repressor of DNA damage response
MexT | Global virulence regulator
MogR | Repressor of flagellar motility genes
NuR | Nickel-responsive regulator
ToxT | Regulator of MSHA biosynthesis

NZ_PIJH01000003.1 - Region 2 - betalactone
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 227,338 - 251,642 nt. (total: 24,305 nt) Show pHMM detection rules used
betalactone: (HMGL-like and AMP-binding)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
CV632_RS08735: acyl-CoA dehydrogenase

smcogs
  SMCOG1006: acyl-CoA dehydrogenase

Transferases: carboxylase transferase
CV632_RS08745: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

CV632_RS08765: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

Lyases: hydratase
CV632_RS08760: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase
CV632_RS08710: cysteine synthase

smcogs
  SMCOG1081: cysteine synthase

CV632_RS08740: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

CV632_RS08755: 2-isopropylmalate synthase

smcogs
  SMCOG1271: 2-isopropylmalate synthase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | betalactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002284.3 |  | 0.55 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0001160.5 |  | 0.52 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.52 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0000131.5 |  | 0.47 | PKS | pyrrolomycin | Streptomyces sp. UC 11065
BGC0000207.5 |  | 0.46 | PKS | chartreusin | Streptomyces chartreusis
BGC0000706.3 |  | 0.45 | saccharide | kanamycin | Streptomyces kanamyceticus
BGC0001103.5 |  | 0.45 | NRPS, PKS | mycosubtilin | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0002405.2 |  | 0.45 | saccharide | mid-chain acyl sugars | Solanum lycopersicum
BGC0000234.5 |  | 0.44 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0001095.5 |  | 0.43 | NRPS | fengycin | Bacillus velezensis FZB42

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002284.3 |  | 0.55 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0001160.5 |  | 0.52 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.52 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0000131.5 |  | 0.47 | PKS | pyrrolomycin | Streptomyces sp. UC 11065
BGC0000207.5 |  | 0.46 | PKS | chartreusin | Streptomyces chartreusis
BGC0000706.3 |  | 0.45 | saccharide | kanamycin | Streptomyces kanamyceticus
BGC0001103.5 |  | 0.45 | NRPS, PKS | mycosubtilin | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0002405.2 |  | 0.45 | saccharide | mid-chain acyl sugars | Solanum lycopersicum
BGC0000234.5 |  | 0.44 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0001095.5 |  | 0.43 | NRPS | fengycin | Bacillus velezensis FZB42

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 21.38 out of 25.88
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.16 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.58 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.59 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.28 out of 28.19
Confidence: medium
Additional weak hits (6):
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.47 out of 26.06
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.62 out of 31.73
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.18 out of 29.38
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.68 out of 26.12
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.22 out of 29.25
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.69 out of 29.65
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
PsrA | Oleic acid responsive regulator
ZuR variant 1 | Zinc-responsive repressor

NZ_PIJH01000004.1 - Region 1 - lanthipeptide-class-i
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 153,824 - 180,236 nt. (total: 26,413 nt) Show pHMM detection rules used
lanthipeptide-class-i: (((Lant_dehydr_N or Lant_dehydr_C) and cds(LANC_like and not Pkinase)) and not (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: sulfhydrylase
CV632_RS11815: O-succinylhomoserine sulfhydrylase

smcogs
  SMCOG1168: O-succinylhomoserine sulfhydrylase

Hydrolases: amidase
CV632_RS11825: amidase

smcogs
  SMCOG1105: amidase

Lyases: cyclase dehydratase
CV632_RS11795: Lanthionine synthetase C family protein

smcogs
  SMCOG1140: Lanthionine synthetase C family protein

CV632_RS11805: Lantibiotic dehydratase domain protein

smcogs
  SMCOG1155: Lantibiotic dehydratase domain protein

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | lanthipeptide-class-i | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000515.4 |  | 1.00 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0002576.2 |  | 0.75 | ribosomal | mechercharmycin | Thermoactinomyces sp.
BGC0001289.5 |  | 0.60 | ribosomal | penisin | Paenibacillus ehimensis
BGC0000538.3 |  | 0.59 | ribosomal | nisin Z | Lactococcus lactis
BGC0000542.3 |  | 0.58 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000541.5 |  | 0.58 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000506.4 |  | 0.57 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii
BGC0000544.4 |  | 0.56 | ribosomal | planosporicin | Planomonospora alba
BGC0001789.3 |  | 0.56 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000559.4 |  | 0.56 | ribosomal | subtilin | Bacillus subtilis subsp. spizizenii ATCC 6633

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000515.4 |  | 1.00 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0002576.2 |  | 0.75 | ribosomal | mechercharmycin | Thermoactinomyces sp.
BGC0001289.5 |  | 0.60 | ribosomal | penisin | Paenibacillus ehimensis
BGC0000538.3 |  | 0.59 | ribosomal | nisin Z | Lactococcus lactis
BGC0000542.3 |  | 0.58 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000541.5 |  | 0.58 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000506.4 |  | 0.57 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii
BGC0000544.4 |  | 0.56 | ribosomal | planosporicin | Planomonospora alba
BGC0001789.3 |  | 0.56 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000559.4 |  | 0.56 | ribosomal | subtilin | Bacillus subtilis subsp. spizizenii ATCC 6633

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.

#### Lanthipeptide(s) for CV632_RS11805

CV632_RS11810
Leader:
MAKFDDFDLDIVVKKQDDVVQPN
Core:
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
Core with dehydrations:
V Dhb Dha K Dha L Cys Dhb P G Cys I Dhb G V L M Cys L Dhb Q N Dha Cys V Dha Cys N Dha Cys I R Cys

#### antiSMASH-DB 4.0 matches for CV632_RS11810

100.0%
NC_009328.1 and 5 others:
NZ_CP014749.1 Lanthipeptides: A0V43_RS19510_lanthipeptide NZ_CP014749.1 Lanthipeptides: A0V43_RS19510_lanthipeptide NZ_CP017690.1 Lanthipeptides: GTID1_RS08690_lanthipeptide NZ_CP017694.1 Lanthipeptides: GD3902_RS07590_lanthipeptide NZ_PIJH01000004.1 Lanthipeptides: CV632_RS11810_lanthipeptide
Lanthipeptides: GTNG_RS18005_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
97.0%
NZ_CP014140.1:
Lanthipeptides: ACH33_RS18880_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I+C
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I K C
33
93.9%
NC_006510.1 and 4 others:
NZ_CP018058.1 Lanthipeptides: GT3921_RS18655_lanthipeptide NZ_CP025074.1 Lanthipeptides: CWI35_RS08795_lanthipeptide NZ_CP027303.2 Lanthipeptides: C1N76_RS05790_lanthipeptide NZ_CP038860.1 Lanthipeptides: E5Z46_RS04660_lanthipeptide
Lanthipeptides: GK_RS18085_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
+T S K S L C T P G C I T G+L M C L T Q N S C V S C N S C I R C
1
I T S K S L C T P G C I T G I L M C L T Q N S C V S C N S C I R C
33
with 96 more sequence matches
Only the first 10 are displayed here.
93.9%
NZ_CP023704.1:
Lanthipeptides: CQJ30_RS18315_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
V T S K S L C T P G C I T G+L M C L T Q N S C V S C N S C I+C
1
V T S K S L C T P G C I T G I L M C L T Q N S C V S C N S C I K C
33
69.7%
NZ_AULX01000006.1:
Lanthipeptides: H583_RS0100280_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
+T S K S L C T P G C I T G V L M C T+ +S +S C I+C
1
I T S K S L C T P G C I T G V L M C F T K G C E I S-H S C I K C
32
66.7%
NZ_LT732548.1:
Lanthipeptides: CZ379_RS19505_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C I R C
33
+T S K S L C T P G C I T G V L M C T+ +S +S C++C
1
I T S K S L C T P G C I T G V L M C F T K G C E I S-H S C V K C
32
60.6%
NZ_CP085954.1:
Lanthipeptides: LK411_RS13585_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S C
30
+T S K S L C T P G C T G L C T Q N C N C
1
I T S K S L C T P G C P T G A L G C F T Q N-C D P T N G C
29
51.4%
NZ_CP113114.1 and 1 other:
NZ_FZDV01000015.1 Lanthipeptides: CFW84_RS08635_lanthipeptide
Lanthipeptides: OTU45_RS07045_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S
29
+T S S L C T P G C+T G V L M C + +S C N
1
I T S V S L C T P G C V T G V L M C--P G N T I S C N G
27
48.5%
NZ_CP021903.1 and 20 others:
NZ_CP023409.1 Lanthipeptides: Bateq7PJ16_RS18530_lanthipeptide NZ_CP026036.1 Lanthipeptides: C2H93_RS15000_lanthipeptide NZ_CP028218.1 Lanthipeptides: C7M30_RS14555_lanthipeptide NZ_CP035167.1 Lanthipeptides: EQJ08_RS17140_lanthipeptide NZ_CP035226.1 Lanthipeptides: EQW70_RS18175_lanthipeptide NZ_CP045006.1 Lanthipeptides: F9B13_RS03875_lanthipeptide NZ_CP076083.1 Lanthipeptides: KFF76_RS16710_lanthipeptide NZ_CP079759.1 Lanthipeptides: KXZ66_RS17780_lanthipeptide NZ_CP080508.1 Lanthipeptides: K0V03_RS06525_lanthipeptide NZ_CP089148.1 Lanthipeptides: LRO88_RS19055_lanthipeptide NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04985_lanthipeptide NZ_JALAVX010000009.1 Lanthipeptides: MOE40_RS09385_lanthipeptide NZ_JAMYDW010000007.1 Lanthipeptides: NHM07_RS16180_lanthipeptide NZ_JAQOXM010000001.1 Lanthipeptides: PO770_RS03875_lanthipeptide NZ_NJRD01000003.1 Lanthipeptides: CE053_RS07200_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18435_lanthipeptide NZ_SORJ01000001.1 Lanthipeptides: BJ795_RS01490_lanthipeptide NZ_VFNF01000001.1 Lanthipeptides: FB592_RS01525_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03850_lanthipeptide NZ_VLJL01000012.1 Lanthipeptides: L604_RS09425_lanthipeptide
Lanthipeptides: CD007_RS17065_lanthipeptide
3
S K S L C T P G C I T G V L M-C L T Q N S C V S C N
28
S+S L C T P G C+T G V L C Q ++C N
3
S E S L C T P G C V T G V L Q T C F L Q T--I T C N
27
48.5%
NZ_CP116604.1 and 2 others:
NZ_JAFFHI010000008.1 Lanthipeptides: JN541_RS08535_lanthipeptide NZ_JAFFHJ010000004.1 Lanthipeptides: JN542_RS06245_lanthipeptide
Lanthipeptides: PHA78_RS04905_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N
28
+T S S L C T G C I T G +M + V S C N
1
I T S I S L C T A G C I T G R I M G C H K T P T V S C N
28
48.5%
NZ_GG667191.1 and 1 other:
NZ_GG667191.1 Lanthipeptides: HMPREF0298_RS11685_lanthipeptide
Lanthipeptides: HMPREF0298_RS11685_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T
20
+T S K S L C T P G C I T G +M C T
1
I T S K S L C T P G C I T G W M M C N T
20
45.7%
NZ_JALDTZ010000003.1:
Lanthipeptides: M1F37_RS03135_lanthipeptide
1
V T S K S L C T P G C I T G V L M C L T Q N S C V S C N S
29
+T S+S C T P G C+T G+L M C + +S C N
1
I T S R S F C T P G C V T G I L M C--P G N T I S C N G
27
45.5%
NC_015600.1 and 14 others:
NZ_AP020310.1 Lanthipeptides: SAGCMC97051_RS07300_lanthipeptide NZ_ATVP01000001.1 Lanthipeptides: G574_RS11150_lanthipeptide NZ_BCFB01000042.1 Lanthipeptides: GOZ36_RS07980_lanthipeptide NZ_CP068708.1 Lanthipeptides: JM964_RS04040_lanthipeptide NZ_CP116958.1 Lanthipeptides: M0P28_RS07755_lanthipeptide NZ_CP116958.1 Lanthipeptides: M0P28_RS07755_lanthipeptide NZ_FIKS01000005.1 Lanthipeptides: A0525_RS10015_lanthipeptide NZ_GL636070.1 Lanthipeptides: HMPREF9171_RS106200_lanthipeptide NZ_JADPLU010000018.1 Lanthipeptides: I4V82_RS09545_lanthipeptide NZ_JAKVIE010000017.1 Lanthipeptides: MK857_RS08340_lanthipeptide NZ_JAQDQV010000001.1 Lanthipeptides: PGO74_RS00635_lanthipeptide NZ_JAQDQV010000001.1 Lanthipeptides: PGO74_RS00635_lanthipeptide NZ_LR594050.1 Lanthipeptides: FGL20_RS03485_lanthipeptide NZ_SSXN01000004.1 Lanthipeptides: FAJ36_RS04715_lanthipeptide
Lanthipeptides: SGPB_RS10680_lanthipeptide
1
V T S K S L C T P G C I T G V L M
17
V T S K S L C T P G C T G+L M
1
V T S K S L C T P G C K T G I L M
17

#### MIBiG 4.0 matches for CV632_RS11810

38.2%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
1
V T S K S L C T P G C I T G V L M
17
+T S S L C T P G C T G L M
1
I T S I S L C T P G C K T G A L M
17
15.2%
BGC0002144.3 (RCCGEPOP_RS37510):
LAP: phazolicin
23
S C V S C N S C I R C
33
+C C+S R C
2
T C A R C D S S S R C
12
12.1%
BGC0002111.3 (multiple genes):
Lanthipeptide: andalusicin A or andalusicin B
14
G V L M C L T Q N S C
24
G V N+C
13
G V W A S T I S N N C
23

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.18 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.41 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.09 out of 26.06
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.18 out of 20.97
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.67 out of 28.19
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 16.78 out of 18.16
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.04 out of 26.06
Confidence: medium
Additional weak hits (2):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.48 out of 30.25
Confidence: weak
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.27 out of 26.85
Confidence: weak
Lanthipeptides
RREFinder
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.

CV632_RS11810 - Class I
  Cleavage pHMM score: 17.80
  RODEO score: 29
  Monoisotopic mass: 3261.5 Da
  Molecular weight: 3263.9 Da
  Number of bridges: 7
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3281.9 Da N = 1
    3300.0 Da N = 2

RRE predictions
RREfinder results sidepanel.

lanthipeptide-class-i protocluster (153823...180236)
CV632_RS11805
  RRE type: Lanthipeptide_LanB_RRE
  Location: 152 - 241
  Score: 61.0

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CcpA | Catabolite control protein A
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_PIJH01000010.1 - Region 1 - NRP-metallophore,NRPS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 40,579 - 86,526 nt. (total: 45,948 nt) Show pHMM detection rules used
Region on contig edge.
NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
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
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase
CV632_RS15400: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

CV632_RS15525: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

CV632_RS15550: flavin reductase domain protein FMN-binding

smcogs
  SMCOG1160: flavin reductase domain protein FMN-binding

Transferases: PPTase aminotransferase
CV632_RS15395: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

CV632_RS15495: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

Hydrolases: esterase hydrolase
CV632_RS15465: enterobactin/ferric enterobactin esterase

smcogs
  SMCOG1098: enterobactin/ferric enterobactin esterase

CV632_RS15510: isochorismatase

smcogs
  SMCOG1027: isochorismatase

Isomerases: isomerase
CV632_RS15520: isochorismate synthase

smcogs
  SMCOG1018: isochorismate synthase

Ligases: ligase
CV632_RS15505: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

CV632_RS15515: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Translocases: permease
CV632_RS15405: phenylalanine-specific permease

smcogs
  SMCOG1038: phenylalanine-specific permease

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | NRP-metallophore | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0001185.5 |  |  | 1.04 | NRPS | bacillibactin | Bacillus velezensis FZB42
BGC0000401.5 |  |  | 0.93 | NRPS | paenibactin | Paenibacillus elgii B69
BGC0000309.5 |  |  | 0.92 | NRPS | bacillibactin | Bacillus subtilis subsp. subtilis str. 168
BGC0002695.2 |  |  | 0.88 | NRPS | bacillibactin, bacillibactin E, bacillibactin F | Bacillus sp. WMMC1349
BGC0000343.5 |  |  | 0.86 | NRPS | enterobactin | Pseudomonas sp. J465
BGC0002075.3 |  |  | 0.85 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001132.4 |  |  | 0.76 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  |  | 0.76 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  |  | 0.75 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  |  | 0.75 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001185.5 |  | 0.80 | NRPS | bacillibactin | Bacillus velezensis FZB42
BGC0000401.5 |  | 0.76 | NRPS | paenibactin | Paenibacillus elgii B69
BGC0000309.5 |  | 0.76 | NRPS | bacillibactin | Bacillus subtilis subsp. subtilis str. 168
BGC0002695.2 |  | 0.75 | NRPS | bacillibactin, bacillibactin E, bacillibactin F | Bacillus sp. WMMC1349
BGC0000343.5 |  | 0.74 | NRPS | enterobactin | Pseudomonas sp. J465
BGC0002075.3 |  | 0.74 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0001132.4 |  | 0.70 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.70 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  | 0.70 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0
Shows clusters from the MIBiG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 29.38 out of 29.38
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 29.38 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 29.38 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.61 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 28.57 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.81 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.23 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.23 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.84 out of 29.38
Confidence: medium
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.68 out of 28.14
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.67 out of 26.06
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.18 out of 28.19
Confidence: medium
Additional weak hits (13):
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.98 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.50 out of 28.14
Confidence: weak
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 19.97 out of 25.88
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.31 out of 29.38
Confidence: weak
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 19.78 out of 23.43
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.03 out of 31.73
Confidence: weak
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.47 out of 26.85
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions.
Genes are shown in predicted order, and are only present when containing at least one complete module.
A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details.
A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 1, location 40578 - 86526:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Gly - Thr)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
CV632_RS15505: Gly - Thr
Search NORINE for peptide: strict or relaxed
AMP-binding (462..860): 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:
    FAMTFDIAALELQALVGGETNLYGPTETTIWSTM
  Nearest Stachelhaus code(s):
    Gly DILQLGLIWK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1521..1937): Thr
nrpys: Thr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    thr (Thr)
  Single AA prediction:
    thr (Thr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LSTHFDFSVWEGNQIFGGEINMYGITETTVHVSY
  Nearest Stachelhaus code(s):
    Thr DFWNIGMVHK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

CV632_RS15515: diOH-Bz
Search NORINE for peptide: strict or relaxed
AMP-binding (31..435): diOH-Bz
nrpys: diOH-Bz

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

Stachelhaus prediction details:
  Stachelhaus sequence:
    SMSLFPLSSPGGALQVGGAQQVYGMAEGLVNYTR
  Nearest Stachelhaus code(s):
    diOH-Bz PLPAQGVVNK (97% 8Å match)
    diOH-Bz or Sal PLPAQGVVNK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
FuR variant 1 | Ferric Uptake Regulator
MogR | Repressor of flagellar motility genes
PerR | Peroxide regulator
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor