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Overview
1.1
1.2
1.3

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

NZ_CP113914.1 (Bifidobacterium sp. ESL0798)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1 | T3PKS | 438,699 | 479,898 |
Region 2 | terpene-precursor | 651,564 | 672,535 |
Region 3 | lanthipeptide-class-i,terpene-precursor | 1,402,031 | 1,445,232 |  |

NZ_CP113914.1 - 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: 438,699 - 479,898 nt. (total: 41,200 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
Oxidoreductases: dehydrogenase reductase
OZX74_RS01800: hydroxymethylglutaryl-CoA reductase

smcogs
  SMCOG1187: hydroxymethylglutaryl-CoA reductase

OZX74_RS01895: 3-hydroxyisobutyrate dehydrogenase

smcogs
  SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

Transferases: acetyltransferase
OZX74_RS01795: acetyl-CoA acetyltransferase

smcogs
  SMCOG1124: acetyl-CoA acetyltransferase

Isomerases: racemase
OZX74_RS01875: mandelate racemase/muconate lactonizing enzyme

smcogs
  SMCOG1268: mandelate racemase/muconate lactonizing enzyme

OZX74_RS01880: mandelate racemase/muconate lactonizing enzyme

smcogs
  SMCOG1268: mandelate racemase/muconate lactonizing enzyme

Ligases: synthase
OZX74_RS01805: 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 |  | 0.47 | other (other) | polyhydroxyalkanoate | Burkholderia sp. DSM 9242
BGC0000867.3 |  | 0.46 | other (other) | polyhydroxyalkanoic acids | Ectothiorhodospira shaposhnikovii
BGC0002561.3 |  | 0.42 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0002362.3 |  | 0.40 | PKS | loseolamycin A1, loseolamycin A2 | Micromonospora endolithica
BGC0001080.5 |  | 0.37 | other (phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0000286.3 |  | 0.36 | PKS | viguiepinol | Streptomyces sp. KO-3988
BGC0001078.5 |  | 0.35 | PKS, terpene | furaquinocin B | Streptomyces sp. KO-3988
BGC0000916.5 |  | 0.34 | other (other) | molybdenum cofactor | Staphylococcus carnosus
BGC0001076.5 |  | 0.34 | 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 |  | 0.34 | other (other) | A-90289 A, A-90289 B | Streptomyces sp. SANK 60405

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000866.5 |  | 0.47 | other (other) | polyhydroxyalkanoate | Burkholderia sp. DSM 9242
BGC0000867.3 |  | 0.46 | other (other) | polyhydroxyalkanoic acids | Ectothiorhodospira shaposhnikovii
BGC0002561.3 |  | 0.42 | other (other) | phenazine SA, phenazine SB, phenazine SC | Streptomyces sp.
BGC0002362.3 |  | 0.40 | PKS | loseolamycin A1, loseolamycin A2 | Micromonospora endolithica
BGC0001080.5 |  | 0.37 | other (phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0000286.3 |  | 0.36 | PKS | viguiepinol | Streptomyces sp. KO-3988
BGC0001078.5 |  | 0.35 | PKS, terpene | furaquinocin B | Streptomyces sp. KO-3988
BGC0000916.5 |  | 0.34 | other (other) | molybdenum cofactor | Staphylococcus carnosus
BGC0001076.5 |  | 0.34 | 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 |  | 0.34 | other (other) | A-90289 A, A-90289 B | Streptomyces sp. SANK 60405

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: 18.31 out of 18.57
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.53 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.72 out of 27.78
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 16.96 out of 20.97
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.07 out of 18.16
Confidence: strong
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.07 out of 23.79
Confidence: medium
Additional weak hits (21):
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.20 out of 26.12
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.51 out of 29.38
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.43 out of 29.38
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 17.90 out of 28.14
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 20.01 out of 31.73
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 17.65 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.61 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 18.62 out of 26.06
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.47 out of 29.25
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.36 out of 29.25
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.11 out of 26.12
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 18.70 out of 26.12
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 23.36 out of 31.73
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.88 out of 29.38
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 23.56 out of 32.93
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.38 out of 32.93
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.38 out of 21.84
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 17.77 out of 26.06
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 22.08 out of 35.63
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 19.70 out of 29.25
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 19.67 out of 28.19
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
IolR | Regulator of the inositol catabolism
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis

NZ_CP113914.1 - 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: 651,564 - 672,535 nt. (total: 20,972 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
OZX74_RS02750: 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
--- | --- | --- | --- | --- | ---
BGC0000757.3 |  | 0.51 | saccharide | capsular polysaccharide | Avibacterium paragallinarum
BGC0000756.3 |  | 0.50 | saccharide | capsular polysaccharide | Avibacterium paragallinarum
BGC0000513.3 |  | 0.50 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0001969.3 |  | 0.46 | terpene | asperterpenoid A | Talaromyces wortmannii
BGC0000521.3 |  | 0.44 | ribosomal | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0002306.2 |  | 0.43 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001863.4 |  | 0.42 | ribosomal, terpene | bacillicn CER074 | Bacillus mycoides
BGC0001861.4 |  | 0.42 | ribosomal | bacillicin BAG2O | Bacillus cereus BAG2O-1
BGC0000558.5 |  | 0.42 | ribosomal | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000740.3 |  | 0.42 | saccharide | capsular polysaccharide | Streptococcus agalactiae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000757.3 |  | 0.51 | saccharide | capsular polysaccharide | Avibacterium paragallinarum
BGC0000756.3 |  | 0.50 | saccharide | capsular polysaccharide | Avibacterium paragallinarum
BGC0000513.3 |  | 0.50 | ribosomal | Ery-9, Ery-6, Ery-8, Ery-7, Ery-5, Ery-4, Ery-3 | Saccharopolyspora erythraea NRRL 2338
BGC0001969.3 |  | 0.46 | terpene | asperterpenoid A | Talaromyces wortmannii
BGC0000521.3 |  | 0.44 | ribosomal | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0002306.2 |  | 0.43 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001863.4 |  | 0.42 | ribosomal, terpene | bacillicn CER074 | Bacillus mycoides
BGC0001861.4 |  | 0.42 | ribosomal | bacillicin BAG2O | Bacillus cereus BAG2O-1
BGC0000558.5 |  | 0.42 | ribosomal | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000740.3 |  | 0.42 | saccharide | capsular polysaccharide | Streptococcus agalactiae

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
diterpene precursor |  | GGPP | C20 | acyclic | PP
sesterterpene precursor |  | GFPP | C25 | acyclic | PP
triterpene precursor |  | HPP | C30 | acyclic | PP

Genes with terpene domains:
OZX74_RS02750: PT_FPPS_like
Domain 1 (31 - 272): 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:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.13 out of 18.57
Confidence: medium
Additional weak hits (3):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 19.52 out of 29.38
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.75 out of 30.98
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 23.11 out of 33.14
Confidence: weak
Terpene
TFBS Finder
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
--- | ---
ToxT | Regulator of MSHA biosynthesis

NZ_CP113914.1 - Region 3 - lanthipeptide-class-i,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: 1,402,031 - 1,445,232 nt. (total: 43,202 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))
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
Transferases: acyltransferase
OZX74_RS06035: acyltransferase

smcogs
  SMCOG1141: acyltransferase

Lyases: cyclase dehydratase
OZX74_RS05940: Lantibiotic dehydratase domain protein

smcogs
  SMCOG1155: Lantibiotic dehydratase domain protein

OZX74_RS05945: Lanthionine synthetase C family protein

smcogs
  SMCOG1140: Lanthionine synthetase C family protein

Ligases: synthetase
OZX74_RS06020: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

OZX74_RS06025: 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-i | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000528.5 |  |  | 0.17 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000541.5 |  |  | 0.15 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000542.3 |  |  | 0.15 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000556.5 |  |  | 0.15 | ribosomal | streptin | Streptococcus pyogenes
BGC0002294.3 |  |  | 0.15 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0000496.5 |  |  | 0.14 | ribosomal | AmfS | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001789.3 |  |  | 0.14 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000535.4 |  |  | 0.14 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000536.3 |  |  | 0.14 | ribosomal | nisin Q | Lactococcus lactis
BGC0000537.3 |  |  | 0.14 | ribosomal | nisin U | Streptococcus uberis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002323.2 |  | 0.48 | ribosomal | nisin J | Staphylococcus capitis
BGC0000556.5 |  | 0.48 | ribosomal | streptin | Streptococcus pyogenes
BGC0000535.4 |  | 0.48 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0001789.3 |  | 0.48 | ribosomal | suicin 90-1330 | Streptococcus suis
BGC0000536.3 |  | 0.48 | ribosomal | nisin Q | Lactococcus lactis
BGC0000541.5 |  | 0.48 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000496.5 |  | 0.48 | ribosomal | AmfS | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000537.3 |  | 0.48 | ribosomal | nisin U | Streptococcus uberis
BGC0000528.5 |  | 0.47 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000542.3 |  | 0.47 | ribosomal | paenicidin B | Paenibacillus terrae

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 OZX74_RS05940

allorf_1411802_1411978
Leader:
MQTIKEESMSEFDLDARIEKSKPTVTPL
Core:
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F G
Core with dehydrations:
V Dhb Dha H Dha L Cys Dhb P G Cys P Dha G G F A Cys F Dha Dhb Q Cys Dhb N G Cys H F G

#### antiSMASH-DB 4.0 matches for allorf_1411802_1411978

100.0%
NZ_CP113914.1:
Lanthipeptides: allorf_1411802_1411978_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F G
30
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F G
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F G
30
61.8%
NZ_KE951497.1:
Lanthipeptides: allorf_8519_8683_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F
29
+T S L C T P G C P+G G A C F+T Q C T N G C
1
I T S K F L C T P G C P T G G I A C F T T Q C T N G C S I
29
58.8%
NZ_JALGRO010000002.1:
Lanthipeptides: MT346_RS01980_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C
27
+T S S L C T P G C P+G G F A C F+ C T G C
1
I T S F S L C T P G C P T G G F A C F T A A C T G G C
27
with 113 more sequence matches
Only the first 10 are displayed here.
58.8%
NZ_SNVW01000005.1:
Lanthipeptides: EDF64_RS09155_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F
29
+T S S L C T P G C P+G G F A C F+ C T G C
1
I T S V S L C T P G C P T G G F A C F T A A C T G G C T I
29
58.1%
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 H S L C T P G C P S G G F A-C F S T Q C T N G C H F G
30
V T S S L C T P G C +G C T G C H F G
1
V T S K S L C T P G C K T G I L M T C A I K T A T C G C H F G
31
56.7%
NZ_CP024974.1 and 1 other:
NZ_JAIMDQ010000006.1 Lanthipeptides: K6V44_RS04045_lanthipeptide
Lanthipeptides: CVO91_RS06555_lanthipeptide
1
V T S H S L C T P G C P S G G F A-C F S T Q C T N G C H F
29
V T S S L C T P G C +G C T G C H F
1
V T S I S L C T P G C K T G I L M T C A I K T A T C G C H F
30
56.7%
NZ_CP034587.1:
Lanthipeptides: EKH77_RS16870_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F
29
+T S S L C T P G C P S C ++ C T G C H
1
I T S I S L C T P G C P S A A-G C T T S V C T Q G C H I
28
56.2%
NZ_JAMDIB010000004.1:
Lanthipeptides: M5P35_RS04030_lanthipeptide
1
V T S H S L C T-P G C P S G G F-A C F S T Q C T N G C H F G
30
V T S S L C T P G C +G C T G C H F G
1
V T S K S L C T P P G C K T G I L M T C A I K T A T C G C H F G
32
54.5%
NZ_CP085954.1:
Lanthipeptides: LK411_RS13585_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C--T N G C H F
29
+T S S L C T P G C P+G C F+ C T N G 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 T I
31
53.1%
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
V T S H S L C T P G C P S G G F-A C F S T Q C T N G C H F G
30
+T S S L C T P G C +G C T G C H F G
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 G
31
50.0%
NZ_CP086322.1:
Lanthipeptides: K9S39_RS23570_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F
29
+T S S L C T P G C + C + +C T G C H
1
I T S V S L C T P G C V T A A-G C T T A K C T Q G C H I
28
50.0%
NZ_NDXL01000003.1:
Lanthipeptides: B7024_RS31125_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F
29
+T S S L C T P G C + C ++ C T G C H
1
I T S W S L C T P G C V T A A-G C T T S V C T Q G C H V
28
48.4%
NZ_GG667191.1 and 1 other:
NZ_GG667191.1 Lanthipeptides: HMPREF0298_RS11685_lanthipeptide
Lanthipeptides: HMPREF0298_RS11685_lanthipeptide
1
V T S H S L C T P G C P S G G F A C F S T Q C T N G C H F
29
+T S S L C T P G C +G C + T G C F
1
I T S K S L C T P G C I T G W M M C N T V--T K G C S F
27

#### MIBiG 4.0 matches for allorf_1411802_1411978

29.4%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
1
V T S H S L C T P G C P S G G F
16
+T S S L C T P G C +G
1
I T S I S L C T P G C K T G A L
16
14.7%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
23
C T N G C H F G
30
C T G C G
7
C T P G C K T G
14

#### 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:
OZX74_RS06025: PT_FPPS_like
Domain 1 (21 - 210): 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:
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.42 out of 20.47
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.37 out of 27.78
Confidence: medium
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.49 out of 20.97
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.19 out of 24.78
Confidence: medium
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.28 out of 23.05
Confidence: medium
Additional weak hits (5):
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.06 out of 26.33
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 20.61 out of 31.73
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.26 out of 29.38
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.58 out of 29.38
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.11 out of 29.65
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.

allorf_1411802_1411978 - Class I
  Cleavage pHMM score: -0.00
  RODEO score: 26
  Monoisotopic mass: 2861.2 Da
  Molecular weight: 2863.2 Da
  Number of bridges: 5
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2881.2 Da N = 1
    2899.2 Da N = 2
    2917.2 Da N = 3

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
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production
CRP | Cyclic AMP receptor protein
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 2 | Repressor of DNA damage response
VqsM | Regulator of quorum-sensing signalling systems