Select genomic region:
Overview
2.1
6.1
9.1
9.2
9.3
9.4

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

NZ_MTJS01000001.1 (Lactococcus lactis)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 2.1 | RaS-RiPP | 34,111 | 56,501 |

NZ_MTJS01000005.1 (Lactococcus lactis)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 6.1 | RaS-RiPP | 121 | 26,502 |

NZ_MTJS01000002.1 (Lactococcus lactis)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 9.1 | T3PKS | 442,688 | 483,842 |
Region 9.2 | terpene-precursor | 1,237,049 | 1,257,906 |
Region 9.3 | lanthipeptide-class-i | 1,500,829 | 1,526,860 | High | nisin A | ribosomal:RiPP:Lanthipeptide
Region 9.4 | betalactone,RiPP-like | 1,527,929 | 1,564,756 |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 2.1 | RaS-RiPP | 34,111 | 56,501 |
Region 6.1 | RaS-RiPP | 121 | 26,502 |
Region 9.1 | T3PKS | 442,688 | 483,842 |
Region 9.2 | terpene-precursor | 1,237,049 | 1,257,906 |
Region 9.3 | lanthipeptide-class-i | 1,500,829 | 1,526,860 | High | nisin A | ribosomal:RiPP:Lanthipeptide
Region 9.4 | betalactone,RiPP-like | 1,527,929 | 1,564,756 |

No secondary metabolite regions were found in these records:
  NZ_MTJS01000003.1 (Lactococcus lactis)
  NZ_MTJS01000011.1 (Lactococcus lactis)
  NZ_MTJS01000004.1 (Lactococcus lactis)
  NZ_MTJS01000006.1 (Lactococcus lactis)
  NZ_MTJS01000007.1 (Lactococcus lactis)
  NZ_MTJS01000008.1 (Lactococcus lactis)

Compact view
NZ_MTJS01000001.1 - Region 1 - RaS-RiPP
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: 34,111 - 56,501 nt. (total: 22,391 nt) Show pHMM detection rules used
RaS-RiPP: (PF04055 and TIGR01716)

#### 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: oxidoreductase
BW154_RS00235: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: aminotransferase
BW154_RS00200: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Ligases: synthase
BW154_RS00245: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs
  SMCOG1110: 1-deoxy-D-xylulose-5-phosphate 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 | RaS-RiPP | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002306.2 |  | 0.63 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001534.3 |  | 0.44 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0001535.3 |  | 0.44 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0001929.2 |  | 0.43 | ribosomal | WGK | Streptococcus ferus
BGC0000571.3 |  | 0.41 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0002674.2 |  | 0.41 | ribosomal | enterocin F4-9 | Enterococcus faecalis
BGC0001639.3 |  | 0.41 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0000543.5 |  | 0.40 | ribosomal | pep5 | Staphylococcus epidermidis
BGC0002701.2 |  | 0.39 | ribosomal | paenithipeptin | Paenibacillus thiaminolyticus
BGC0001863.4 |  | 0.39 | ribosomal, terpene | bacillicn CER074 | Bacillus mycoides

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002306.2 |  | 0.63 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001534.3 |  | 0.44 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0001535.3 |  | 0.44 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0001929.2 |  | 0.43 | ribosomal | WGK | Streptococcus ferus
BGC0000571.3 |  | 0.41 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0002674.2 |  | 0.41 | ribosomal | enterocin F4-9 | Enterococcus faecalis
BGC0001639.3 |  | 0.41 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0000543.5 |  | 0.40 | ribosomal | pep5 | Staphylococcus epidermidis
BGC0002701.2 |  | 0.39 | ribosomal | paenithipeptin | Paenibacillus thiaminolyticus
BGC0001863.4 |  | 0.39 | ribosomal, terpene | bacillicn CER074 | Bacillus mycoides

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:
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.58 out of 20.97
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 23.70 out of 28.19
Confidence: medium
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 19.49 out of 20.01
Confidence: strong
Additional weak hits (4):
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.23 out of 26.85
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 26.85 out of 31.73
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.51 out of 30.98
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.52 out of 30.11
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArgR | Regulator of arginine biosynthesis genes
CcpA | Catabolite control protein A
ZuR variant 1 | Zinc-responsive repressor

NZ_MTJS01000005.1 - Region 1 - RaS-RiPP
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: 121 - 26,502 nt. (total: 26,382 nt) Show pHMM detection rules used
RaS-RiPP: (PF04055 and TIGR01716)

#### 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
BW154_RS11895: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

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 | RaS-RiPP | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001209.3 |  | 0.62 | ribosomal | streptide | Streptococcus thermophilus LMD-9
BGC0001929.2 |  | 0.48 | ribosomal | WGK | Streptococcus ferus
BGC0000779.3 |  | 0.38 | saccharide | lipopolysaccharide | Aeromonas piscicola
BGC0000938.5 |  | 0.38 | other (aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0002287.2 |  | 0.37 | NRPS | mutanocyclin, leuvalin, tyrvalin | Streptococcus mutans
BGC0000806.5 |  | 0.29 | saccharide | phosphonoglycans | Glycomyces sp. NRRL B-16210
BGC0000982.5 |  | 0.28 | NRPS, PKS | cystothiazole A | Cystobacter fuscus
BGC0001055.5 |  | 0.28 | NRPS, PKS | yersiniabactin | Escherichia coli
BGC0000780.3 |  | 0.24 | saccharide | O&K-antigen | Vibrio parahaemolyticus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001209.3 |  | 0.62 | ribosomal | streptide | Streptococcus thermophilus LMD-9
BGC0001929.2 |  | 0.48 | ribosomal | WGK | Streptococcus ferus
BGC0000779.3 |  | 0.38 | saccharide | lipopolysaccharide | Aeromonas piscicola
BGC0000938.5 |  | 0.38 | other (aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0002287.2 |  | 0.37 | NRPS | mutanocyclin, leuvalin, tyrvalin | Streptococcus mutans
BGC0000806.5 |  | 0.29 | saccharide | phosphonoglycans | Glycomyces sp. NRRL B-16210
BGC0000982.5 |  | 0.28 | NRPS, PKS | cystothiazole A | Cystobacter fuscus
BGC0001055.5 |  | 0.28 | NRPS, PKS | yersiniabactin | Escherichia coli
BGC0000780.3 |  | 0.24 | saccharide | O&K-antigen | Vibrio parahaemolyticus

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:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.74 out of 26.06
Confidence: medium
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: 23.97 out of 26.06
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.06 out of 19.26
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.21 out of 26.06
Confidence: strong
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: 22.93 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.11 out of 26.06
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.02 out of 23.79
Confidence: medium
Additional weak hits (2):
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.90 out of 32.74
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.19 out of 28.14
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
IolR | Regulator of the inositol catabolism
MogR | Repressor of flagellar motility genes

NZ_MTJS01000002.1 - 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: 442,688 - 483,842 nt. (total: 41,155 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
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 reductase
BW154_RS05070: hydroxymethylglutaryl-CoA reductase

smcogs
  SMCOG1187: hydroxymethylglutaryl-CoA reductase

BW154_RS05155: dehydrogenase

smcogs
  SMCOG1181: dehydrogenase

Transferases: acetyltransferase glycosyltransferase
BW154_RS04980: glycosyltransferase, MGT family

smcogs
  SMCOG1062: glycosyltransferase, MGT family

BW154_RS05065: acetyl-CoA acetyltransferase

smcogs
  SMCOG1124: acetyl-CoA acetyltransferase

Ligases: synthase
BW154_RS05060: hydroxymethylglutaryl-CoA synthase

smcogs
  SMCOG1043: hydroxymethylglutaryl-CoA 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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000866.5 |  | 0.51 | other (other) | polyhydroxyalkanoate | Burkholderia sp. DSM 9242
BGC0000867.3 |  | 0.49 | other (other) | polyhydroxyalkanoic acids | Ectothiorhodospira shaposhnikovii
BGC0000764.3 |  | 0.41 | saccharide | exopolysaccharide | Lactococcus lactis
BGC0002561.3 |  | 0.40 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0001080.5 |  | 0.37 | other (phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0000286.3 |  | 0.36 | PKS | viguiepinol | Streptomyces sp. KO-3988
BGC0000934.4 |  | 0.36 | other (phenazine) | 5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G | Kitasatospora sp. HKI 714
BGC0001076.5 |  | 0.35 | other (nucleoside) | liposidomycin B, liposidomycin A, liposidomycin C, liposidomycin Z, liposidomycin H, liposidomycin G, liposidomycin L, liposidomycin M, liposidomycin K, liposidomycin N | Streptomyces sp. SN-1061M
BGC0000872.5 |  | 0.35 | other (other) | A-90289 A, A-90289 B | Streptomyces sp. SANK 60405
BGC0001078.5 |  | 0.35 | PKS, terpene | furaquinocin B | Streptomyces sp. KO-3988

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000866.5 |  | 0.51 | other (other) | polyhydroxyalkanoate | Burkholderia sp. DSM 9242
BGC0000867.3 |  | 0.49 | other (other) | polyhydroxyalkanoic acids | Ectothiorhodospira shaposhnikovii
BGC0000764.3 |  | 0.41 | saccharide | exopolysaccharide | Lactococcus lactis
BGC0002561.3 |  | 0.40 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0001080.5 |  | 0.37 | other (phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0000286.3 |  | 0.36 | PKS | viguiepinol | Streptomyces sp. KO-3988
BGC0000934.4 |  | 0.36 | other (phenazine) | 5-acetyl-5,10-dihydrophenazine-1-carboxylic acid, 5-(2-hydroxyacetyl)-5,10-dihydrophenazine-1-carboxylic acid, endophenazine A1, endophenazine F, endophenazine G | Kitasatospora sp. HKI 714
BGC0001076.5 |  | 0.35 | other (nucleoside) | liposidomycin B, liposidomycin A, liposidomycin C, liposidomycin Z, liposidomycin H, liposidomycin G, liposidomycin L, liposidomycin M, liposidomycin K, liposidomycin N | Streptomyces sp. SN-1061M
BGC0000872.5 |  | 0.35 | other (other) | A-90289 A, A-90289 B | Streptomyces sp. SANK 60405
BGC0001078.5 |  | 0.35 | PKS, terpene | furaquinocin B | Streptomyces sp. KO-3988

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:
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 24.83 out of 27.78
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 24.00 out of 27.78
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.21 out of 26.06
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.76 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.30 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.41 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.93 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.26 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.96 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.67 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.92 out of 27.78
Confidence: medium
Additional weak hits (5):
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 16.17 out of 20.47
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.68 out of 26.12
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.92 out of 31.73
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.42 out of 31.73
Confidence: weak
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 15.78 out of 18.46
Confidence: weak
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
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
MogR | Repressor of flagellar motility genes

NZ_MTJS01000002.1 - Region 2 - 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: 1,237,049 - 1,257,906 nt. (total: 20,858 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
Ligases: synthetase
BW154_RS08655: 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
--- | --- | --- | --- | --- | ---
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0001756.3 |  | 0.29 | terpene | retigeranin, arathanatriene | Arabidopsis thaliana
BGC0001605.3 |  | 0.28 | terpene | gibberellin | Sinorhizobium fredii NGR234
BGC0001227.3 |  | 0.27 | terpene | isorenieratene | Streptomyces collinus Tu 365
BGC0000633.3 |  | 0.27 | terpene | carotenoid | Streptomyces avermitilis
BGC0000648.3 |  | 0.27 | terpene | carotenoid | Myxococcus xanthus
BGC0001529.5 |  | 0.27 | other (other) | benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K | Streptomyces sp. RI18
BGC0001456.3 |  | 0.27 | terpene | isorenieratene | Streptomyces argillaceus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0001756.3 |  | 0.29 | terpene | retigeranin, arathanatriene | Arabidopsis thaliana
BGC0001605.3 |  | 0.28 | terpene | gibberellin | Sinorhizobium fredii NGR234
BGC0001227.3 |  | 0.27 | terpene | isorenieratene | Streptomyces collinus Tu 365
BGC0000633.3 |  | 0.27 | terpene | carotenoid | Streptomyces avermitilis
BGC0000648.3 |  | 0.27 | terpene | carotenoid | Myxococcus xanthus
BGC0001529.5 |  | 0.27 | other (other) | benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K | Streptomyces sp. RI18
BGC0001456.3 |  | 0.27 | terpene | isorenieratene | Streptomyces argillaceus

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
--- | --- | --- | --- | --- | ---
sesquiterpene precursor |  | FPP | C15 | acyclic | PP

Genes with terpene domains:
BW154_RS08655: PT_FPPS_like
Domain 1 (25 - 281): 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:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.27 out of 26.06
Confidence: strong
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.74 out of 28.14
Confidence: medium
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 30.52 out of 30.97
Confidence: strong
Additional weak hits (3):
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 19.86 out of 30.22
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.05 out of 33.73
Confidence: weak
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.16 out of 27.55
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
--- | ---
CopR | Copper-responsive regulator
MogR | Repressor of flagellar motility genes
PerR | Peroxide regulator

NZ_MTJS01000002.1 - Region 3 - 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: 1,500,829 - 1,526,860 nt. (total: 26,032 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
Hydrolases: protease
BW154_RS09825: alkaline serine protease, subtilase family

smcogs
  SMCOG1075: alkaline serine protease, subtilase family

Lyases: cyclase dehydratase
BW154_RS09790: diguanylate cyclase

smcogs
  SMCOG1025: diguanylate cyclase

BW154_RS09835: Lanthionine synthetase C family protein

smcogs
  SMCOG1140: Lanthionine synthetase C family protein

BW154_RS09845: Lantibiotic dehydratase domain protein

smcogs
  SMCOG1155: Lantibiotic dehydratase domain protein

Ligases: synthase
BW154_RS09885: polyprenol-monophosphomannose synthase ppm1

smcogs
  SMCOG1123: polyprenol-monophosphomannose synthase ppm1

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
--- | --- | --- | --- | --- | ---
BGC0000535.4 |  | 0.96 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000538.3 |  | 0.92 | ribosomal | nisin Z | Lactococcus lactis
BGC0000536.3 |  | 0.86 | ribosomal | nisin Q | Lactococcus lactis
BGC0001789.3 |  | 0.78 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000537.3 |  | 0.76 | ribosomal | nisin U | Streptococcus uberis
BGC0000549.3 |  | 0.68 | ribosomal | salivaricin D | Streptococcus salivarius
BGC0000542.3 |  | 0.59 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0002323.2 |  | 0.58 | ribosomal | nisin J | Staphylococcus capitis
BGC0000541.5 |  | 0.56 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000506.4 |  | 0.56 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000535.4 |  | 0.96 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000538.3 |  | 0.92 | ribosomal | nisin Z | Lactococcus lactis
BGC0000536.3 |  | 0.86 | ribosomal | nisin Q | Lactococcus lactis
BGC0001789.3 |  | 0.78 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000537.3 |  | 0.76 | ribosomal | nisin U | Streptococcus uberis
BGC0000549.3 |  | 0.68 | ribosomal | salivaricin D | Streptococcus salivarius
BGC0000542.3 |  | 0.59 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0002323.2 |  | 0.58 | ribosomal | nisin J | Staphylococcus capitis
BGC0000541.5 |  | 0.56 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000506.4 |  | 0.56 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii

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 BW154_RS09845

BW154_RS09850
Leader:
MSTKDFNLDLVSVSKKDSGASPR
Core:
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
Core with dehydrations:
I Dhb Dha I Dha L Cys Dhb P G Cys K Dhb G A L M G Cys N M K Dhb A Dhb Cys N Cys Dha I H V Dha K

#### antiSMASH-DB 4.0 matches for BW154_RS09850

100.0%
NC_013656.1 and 18 others:
NC_020450.1 Lanthipeptides: LILO_RS03015_lanthipeptide NZ_CP009472.1 Lanthipeptides: LG36_RS03420_lanthipeptide NZ_CP010050.1 Lanthipeptides: QI18_RS03300_lanthipeptide NZ_CP015903.1 Lanthipeptides: LLUC08_RS03255_lanthipeptide NZ_CP024954.1 Lanthipeptides: CV702_RS02990_lanthipeptide NZ_CP066300.1 Lanthipeptides: LacL0098_RS03205_lanthipeptide NZ_CP098790.1 Lanthipeptides: M5C73_RS03405_lanthipeptide NZ_JAALEQ010000006.1 Lanthipeptides: HFD15_RS10120_lanthipeptide NZ_JAJONJ010000005.1 Lanthipeptides: LSG16_RS07195_lanthipeptide NZ_JAQDWM010000007.1 Lanthipeptides: PGU01_RS08180_lanthipeptide NZ_JAQDXV010000018.1 Lanthipeptides: PGT80_RS11850_lanthipeptide NZ_JAQEIZ010000019.1 Lanthipeptides: PGX18_RS12025_lanthipeptide NZ_JAQEOU010000022.1 Lanthipeptides: PGV42_RS12330_lanthipeptide NZ_JAQEOV010000015.1 Lanthipeptides: PGW09_RS10765_lanthipeptide NZ_MTJP01000006.1 Lanthipeptides: BW151_RS03795_lanthipeptide NZ_MTJR01000005.1 Lanthipeptides: BW153_RS02980_lanthipeptide NZ_MTJS01000002.1 Lanthipeptides: BW154_RS09850_lanthipeptide NZ_RAGL01000022.1 Lanthipeptides: D6108_RS11395_lanthipeptide
Lanthipeptides: LLKF_RS13210_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
97.1%
NZ_CP065984.1 and 2 others:
NZ_CP095737.1 Lanthipeptides: MXM90_RS03205_lanthipeptide NZ_JAQDXJ010000021.1 Lanthipeptides: PGU19_RS11740_lanthipeptide
Lanthipeptides: I6I21_RS02785_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S I S L C T P G C K T G A L M G C N M K T A T C+C S I H V S K
1
I T S I S L C T P G C K T G A L M G C N M K T A T C H C S I H V S K
34
97.1%
NZ_JAQDYA010000007.1 and 1 other:
NZ_JAQDYA010000007.1 Lanthipeptides: PGT72_RS09560_lanthipeptide
Lanthipeptides: PGT72_RS09560_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S+
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S R
34
with 123 more sequence matches
Only the first 10 are displayed here.
85.3%
NZ_FBTD01000003.1:
Lanthipeptides: PB1E_RS03075_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S+S L C T P G C K T G A L M G C N M K T A+C C +H V S K
1
I T S V S L C T P G C K T G A L M G C N M K T A S C G C H V H V S K
34
82.4%
NZ_JADNFO010000025.1:
Lanthipeptides: I2C89_RS09745_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S S L C T P G C K T G L M C++K T A T C N C S I V S K
1
I T S Y S L C T P G C K T G V L M A C H L K T A T C N C S I I V S K
34
79.4%
NZ_CP090412.1 and 3 others:
NZ_QSTB01000004.1 Lanthipeptides: DXC22_RS03785_lanthipeptide NZ_VSTZ01000009.1 Lanthipeptides: FYK98_RS07445_lanthipeptide NZ_VSTZ01000009.1 Lanthipeptides: FYK98_RS07445_lanthipeptide
Lanthipeptides: LZF92_RS09890_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S S L C T P G C K T G A L M G C M K T A+C C +H+S K
1
I T S Y S L C T P G C K T G A L M G C T M K T A S C G C H V H I S K
34
77.1%
NZ_FNDP01000013.1:
Lanthipeptides: BLP54_RS11230_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V
32
I T S S L C T P G C T G L M G C N K T A T C N C S+H V
3
I T S K S L C T P G C V T G V L M G C N N K T A T C N C S V H V
34
70.6%
NC_022237.1 and 1 other:
NZ_JUZI01000019.1 Lanthipeptides: ADI02_RS09325_lanthipeptide
Lanthipeptides: SII_RS05025_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
+T S+ +C T P G C T G A L M G C N++T A T C N C +H+S K
1
V T S V F M C T P G C V T G A L M G C N L Q T A T C N C H V H I S K
34
68.6%
NZ_CP013655.1 and 2 others:
NZ_CP013655.1 Lanthipeptides: ATZ35_RS03635_lanthipeptide NZ_CP013655.1 Lanthipeptides: ATZ35_RS03630_lanthipeptide
Lanthipeptides: ATZ35_RS03640_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S S L C T P G C T G L M G C +K T T C N C S+ + K
1
I T S K S L C T P G C V T G V L M G C A L K T I T C N C S V G I G K
34
68.6%
NZ_FNDP01000013.1 and 1 other:
NZ_FNDP01000013.1 Lanthipeptides: BLP54_RS11225_lanthipeptide
Lanthipeptides: BLP54_RS11220_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V
32
I T S S L C T P G C T G L M G C +A T C N C S+H V
3
I T S K S L C T P G C V T G L L M G C A G S S A T C N C S V H V
34
67.6%
NZ_CP059471.1 and 3 others:
NZ_FNZW01000001.1 Lanthipeptides: BMZ61_RS02110_lanthipeptide NZ_FOYC01000001.1 Lanthipeptides: BMZ88_RS03370_lanthipeptide NZ_KE384124.1 Lanthipeptides: G597_RS0106700_lanthipeptide
Lanthipeptides: H1R75_RS06635_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I
30
I T S S L C T P G C K T G A L M C +K T A T C C
1
I T S K S L C T P G C K T G A L M T C P I K T A T C G C H F
30
67.6%
NZ_LR793265.1:
Lanthipeptides: HV392_RS09830_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S S L C T P G C T G L M G C ++A C N +H V S K
1
I T S Y S L C T P G C I T G V L M G C Q F Q S A G C N V H V H V S K
34
64.7%
NZ_CP009913.1 and 1 other:
NZ_CP009913.1 Lanthipeptides: SSAL8618_RS00810_lanthipeptide
Lanthipeptides: SSAL8618_RS00815_lanthipeptide
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S S L C T P G C T G L M G C++++ C N +H V S K
1
I T S Y S L C T P G C I T G V L M G C H I Q S I G C N V H V H V S K
34

#### MIBiG 4.0 matches for BW154_RS09850

97.1%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
1
I T S I S L C T P G C K T G A L M G C N M K T A T C N C S I H V S K
34
I T S I S L C T P G C K T G A L M G C N M K T A T C+C S I H V S K
1
I T S I S L C T P G C K T G A L M G C N M K T A T C H C S I H V S K
34

#### 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:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.62 out of 26.06
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
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 28.19 out of 30.97
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 16.78 out of 18.16
Confidence: strong
Additional weak hits (3):
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 15.72 out of 18.46
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 24.64 out of 35.63
Confidence: weak
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 20.28 out of 29.72
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.

BW154_RS09850 - Class I
  Cleavage pHMM score: 26.70
  RODEO score: 27
  Monoisotopic mass: 3310.6 Da
  Molecular weight: 3313.0 Da
  Number of bridges: 5
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3331.0 Da N = 1
    3349.0 Da N = 2
    3367.0 Da N = 3
    3385.1 Da N = 4

RRE predictions
RREfinder results sidepanel.

lanthipeptide-class-i protocluster (1500828...1526860)
BW154_RS09845
  RRE type: Lanthipeptide_LanB_RRE
  Location: 141 - 229
  Score: 25.7

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CRP | Cyclic AMP receptor protein
CopR | Copper-responsive regulator
MogR | Repressor of flagellar motility genes

NZ_MTJS01000002.1 - Region 4 - RiPP-like,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: 1,527,929 - 1,564,756 nt. (total: 36,828 nt) Show pHMM detection rules used
betalactone: (HMGL-like and AMP-binding)
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
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: carboxylase
BW154_RS09935: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Ligases: ligase
BW154_RS09970: 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 | betalactone | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0002447.3 |  |  | 0.19 | ribosomal | cerecyclin | Bacillus cereus
BGC0002116.3 |  |  | 0.13 | ribosomal | darobactin A | Photorhabdus khanii HGB 1456
BGC0000501.3 |  |  | 0.12 | ribosomal | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001579.4 |  |  | 0.12 | ribosomal | duramycin | Streptomyces cinnamoneus
BGC0000904.5 |  |  | 0.12 | other (other) | FR-900098 | Streptomyces rubellomurinus
BGC0000916.5 |  |  | 0.12 | other (other) | molybdenum cofactor | Staphylococcus carnosus
BGC0002699.2 |  |  | 0.11 | ribosomal | nostolysamide A, nostolysamide B | Nostoc punctiforme PCC 73102
BGC0001391.3 |  |  | 0.11 | ribosomal | thusin | Bacillus thuringiensis serovar rongseni
BGC0002092.3 |  |  | 0.10 | NRPS | stechlisin B2, stechlisin C3, stechlisin D3, tensin, stechlisin E2, stechlisin F | Pseudomonas sp.
BGC0000412.5 |  |  | 0.10 | NRPS | pyochelin | Pseudomonas aeruginosa PAO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000904.5 |  | 0.43 | other (other) | FR-900098 | Streptomyces rubellomurinus
BGC0002116.3 |  | 0.41 | ribosomal | darobactin A | Photorhabdus khanii HGB 1456
BGC0000501.3 |  | 0.40 | ribosomal | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0002699.2 |  | 0.40 | ribosomal | nostolysamide A, nostolysamide B | Nostoc punctiforme PCC 73102
BGC0001391.3 |  | 0.40 | ribosomal | thusin | Bacillus thuringiensis serovar rongseni
BGC0001579.4 |  | 0.39 | ribosomal | duramycin | Streptomyces cinnamoneus
BGC0002447.3 |  | 0.39 | ribosomal | cerecyclin | Bacillus cereus
BGC0002681.3 |  | 0.37 | other (other) | rhizoferrin | Francisella tularensis subsp. tularensis SCHU S4
BGC0000543.5 |  | 0.37 | ribosomal | pep5 | Staphylococcus epidermidis
BGC0001660.3 |  | 0.37 | ribosomal | mathermycin | Marinactinospora thermotolerans

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:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.21 out of 26.06
Confidence: strong
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 26.19 out of 30.25
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 25.98 out of 27.78
Confidence: strong
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 19.05 out of 20.97
Confidence: strong
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.54 out of 26.33
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.34 out of 28.19
Confidence: medium
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 26.63 out of 35.63
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.73 out of 32.93
Confidence: medium
Additional weak hits (5):
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.59 out of 29.25
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 27.17 out of 39.62
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 25.19 out of 30.97
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 25.63 out of 31.73
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.94 out of 27.18
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
ColR | Phenol-responsive regulator
LexA variant 3 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes
NrtR | NAD synthesis repressor
ZuR variant 1 | Zinc-responsive repressor