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Overview
1.1
1.2
1.3

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

NZ_CP018787.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | terpene | 1,242,832 | 1,263,125 |
Region 2 | lanthipeptide-class-ii | 1,301,968 | 1,325,000 |
Region 3 | terpene | 1,483,271 | 1,504,086 |

NZ_CP018787.1 - 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: 1,242,832 - 1,263,125 nt. (total: 20,294 nt) Show pHMM detection rules used
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
MIBiG comparison
KnownClusterBlast
Pfam domains
TIGRFAM domains
Similar gene clusters
Shows careas 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
--- | --- | --- | --- | --- | ---
BGC0000648.1 |  | 0.29 | Terpene | carotenoid | Myxococcus xanthus
BGC0000634.1 |  | 0.20 | Terpene | carotenoid | Brevundimonas sp. SD212
BGC0000643.1 |  | 0.20 | Terpene | carotenoid | Brevundimonas vesicularis
BGC0000630.1 |  | 0.20 | Terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000640.1 |  | 0.19 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000633.1 |  | 0.18 | Terpene | carotenoid | Streptomyces avermitilis
BGC0000646.1 |  | 0.18 | Terpene | β-carotein | uncultured bacterium
BGC0000664.1 |  | 0.18 | Terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.1 |  | 0.17 | Terpene | isorenieratene | Streptomyces argillaceus
BGC0001412.1 |  | 0.16 | Saccharide | polysaccharide C | Bacteroides fragilis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000648.1 |  | 0.63 | Terpene | carotenoid | Myxococcus xanthus
BGC0000634.1 |  | 0.53 | Terpene | carotenoid | Brevundimonas sp. SD212
BGC0000643.1 |  | 0.53 | Terpene | carotenoid | Brevundimonas vesicularis
BGC0000630.1 |  | 0.52 | Terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000640.1 |  | 0.52 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000633.1 |  | 0.50 | Terpene | carotenoid | Streptomyces avermitilis
BGC0000646.1 |  | 0.49 | Terpene | β-carotein | uncultured bacterium
BGC0000664.1 |  | 0.49 | Terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001456.1 |  | 0.49 | Terpene | isorenieratene | Streptomyces argillaceus
BGC0001412.1 |  | 0.47 | Saccharide | polysaccharide C | Bacteroides fragilis

Similar known gene clusters
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No matches found.

Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NZ_CP018787.1 - Region 2 - lanthipeptide-class-ii
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: 1,301,968 - 1,325,000 nt. (total: 23,033 nt) Show pHMM detection rules used
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
MIBiG comparison
KnownClusterBlast
Lanthipeptides
Pfam domains
TIGRFAM domains
Similar gene clusters
Shows careas 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 | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001973.1 |  | 0.14 | Other | fervenulin | Streptomyces hiroshimensis
BGC0001972.1 |  | 0.14 | Other | toxoflavin, fervenulin | Streptomyces hiroshimensis
BGC0001796.1 |  | 0.12 | NRP | tauramamide | Brevibacillus laterosporus DSM 25
BGC0001291.1 |  | 0.08 | RiPP | enterocin NKR-5-3B | Enterococcus faecium
BGC0000825.1 |  | 0.06 | Alkaloid | staurosporine | Streptomyces sp. TP-A0274
BGC0000609.1 |  | 0.04 | RiPP | nocathiacin | Nocardia sp. ATCC 202099
BGC0000809.1 |  | 0.04 | Alkaloid | AT2433-A1 | Actinomadura melliaura
BGC0000915.1 |  | 0.03 | Other (Aminocoumarin) | mitomycin | Streptomyces lavendulae
BGC0000033.1 |  | 0.03 | Polyketide | calicheamicin | Micromonospora echinospora

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001973.1 |  | 0.44 | Other | fervenulin | Streptomyces hiroshimensis
BGC0001972.1 |  | 0.44 | Other | toxoflavin, fervenulin | Streptomyces hiroshimensis
BGC0001796.1 |  | 0.39 | NRP | tauramamide | Brevibacillus laterosporus DSM 25
BGC0001291.1 |  | 0.30 | RiPP | enterocin NKR-5-3B | Enterococcus faecium
BGC0000825.1 |  | 0.26 | Alkaloid | staurosporine | Streptomyces sp. TP-A0274
BGC0000609.1 |  | 0.20 | RiPP | nocathiacin | Nocardia sp. ATCC 202099
BGC0000809.1 |  | 0.18 | Alkaloid | AT2433-A1 | Actinomadura melliaura
BGC0000915.1 |  | 0.17 | Other (Aminocoumarin) | mitomycin | Streptomyces lavendulae
BGC0000033.1 |  | 0.15 | Polyketide | calicheamicin | Micromonospora echinospora

Similar known gene clusters
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No matches found.

Lanthipeptide predictions
Lists the possible core peptides for each biosynthetic enzyme, including the predicted class. Each core peptide shows the leader and core peptide sequences, separated by a dash.

#### Lanthipeptide(s) for ctg1_1208 - Putative Class II

allorf_1316452_1316613 leader / core peptide
  VLSDVHGG - KYFLLNRQFDha CRKDha DhaGRHEADIEFADhaQYIILPLRPMHDDhaFLDhaFDhaP
allorf_1310411_1310578 leader / core peptide
  MKYSDRLRLRTLLGK - RKRQFIINVAKLAYDha DhbGDIFPLFYQKINENCQKGGYKKIL

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
Lanthipeptides
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_1316452_1316613 - Class II
  Cleavage pHMM score: -0.80
  RODEO score: 0
  Monoisotopic mass: 5204.7 Da
  Molecular weight: 5207.9 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5225.9 Da N = 1
    5244.0 Da N = 2
    5262.0 Da N = 3
    5280.0 Da N = 4
    5298.0 Da N = 5
    5316.0 Da N = 6
allorf_1310411_1310578 - Class II
  Cleavage pHMM score: -5.50
  RODEO score: 0
  Monoisotopic mass: 4668.6 Da
  Molecular weight: 4671.5 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4689.5 Da N = 1

NZ_CP018787.1 - Region 3 - 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: 1,483,271 - 1,504,086 nt. (total: 20,816 nt) Show pHMM detection rules used
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
MIBiG comparison
KnownClusterBlast
Pfam domains
TIGRFAM domains
Similar gene clusters
Shows careas 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
--- | --- | --- | --- | --- | ---
BGC0000785.1 |  | 0.17 | Saccharide | O-antigen | Burkholderia mallei
BGC0000782.1 |  | 0.17 | Saccharide | O-antigen | Burkholderia pseudomallei 1026b
BGC0000773.1 |  | 0.17 | Saccharide | lipopolysaccharide | Escherichia coli
BGC0000759.1 |  | 0.16 | Saccharide | diutan polysaccharide | Sphingomonas sp. ATCC 53159
BGC0000794.1 |  | 0.16 | Saccharide | S-layer glycan | Geobacillus stearothermophilus
BGC0000775.1 |  | 0.16 | Saccharide | lipopolysaccharide | Legionella pneumophila
BGC0001412.1 |  | 0.16 | Saccharide | polysaccharide C | Bacteroides fragilis
BGC0000768.1 |  | 0.16 | Saccharide | gellan polysaccharide | Sphingomonas elodea ATCC 31461
BGC0000801.1 |  | 0.15 | Saccharide | galactoglucan | Sinorhizobium meliloti
BGC0000758.1 |  | 0.15 | Saccharide | capsular polysaccharide | Staphylococcus aureus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000785.1 |  | 0.49 | Saccharide | O-antigen | Burkholderia mallei
BGC0000782.1 |  | 0.49 | Saccharide | O-antigen | Burkholderia pseudomallei 1026b
BGC0000773.1 |  | 0.48 | Saccharide | lipopolysaccharide | Escherichia coli
BGC0000759.1 |  | 0.47 | Saccharide | diutan polysaccharide | Sphingomonas sp. ATCC 53159
BGC0000794.1 |  | 0.46 | Saccharide | S-layer glycan | Geobacillus stearothermophilus
BGC0000775.1 |  | 0.46 | Saccharide | lipopolysaccharide | Legionella pneumophila
BGC0001412.1 |  | 0.46 | Saccharide | polysaccharide C | Bacteroides fragilis
BGC0000768.1 |  | 0.46 | Saccharide | gellan polysaccharide | Sphingomonas elodea ATCC 31461
BGC0000801.1 |  | 0.45 | Saccharide | galactoglucan | Sinorhizobium meliloti
BGC0000758.1 |  | 0.45 | Saccharide | capsular polysaccharide | Staphylococcus aureus

Similar known gene clusters
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No matches found.

Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names