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Overview
1.1
1.2
1.3
1.4
1.5

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

NC_008345.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | arylpolyene | 345,049 | 388,759 | APE Vf | Other | 45%
Region 2 | RiPP-like | 1,060,404 | 1,068,175 |
Region 3 | PUFA,hglE-KS | 1,411,202 | 1,467,108 | eicosapentaenoic acid | Other | 83%
Region 4 | RiPP-like | 2,871,459 | 2,882,322 |
Region 5 | betalactone | 3,267,535 | 3,296,946 | fengycin | NRP | 13%

NC_008345.1 - Region 1 - arylpolyene
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: 345,049 - 388,759 nt. (total: 43,711 nt) Show pHMM detection rules used
arylpolyene: (APE_KS1 or APE_KS2)

#### 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 | arylpolyene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002008.1 |  | 0.29 | Other | aryl polyenes | Xenorhabdus doucetiae
BGC0000836.1 |  | 0.28 | Other | APE Ec | Escherichia coli CFT073
BGC0000837.1 |  | 0.26 | Other | APE Vf | Aliivibrio fischeri ES114
BGC0000221.1 |  | 0.25 | Polyketide | erdacin | uncultured soil bacterium V167
BGC0001723.1 |  | 0.24 | Polyketide | oviedomycin | Streptomyces antibioticus
BGC0002029.1 |  | 0.23 | Other | bagremycin A, bagremycin B, bagremycin C, bagremycin E, bagremycin F, bagremycin G, ferroverdin A, ferroverdin B, ferroverdin C | Streptomyces lunaelactis
BGC0001592.1 |  | 0.23 | Other | ferroverdin | Streptomyces lunaelactis
BGC0000889.1 |  | 0.23 | Other | bagremycin A, bagremycin B | Streptomyces sp. WK-5344
BGC0000234.1 |  | 0.23 | Polyketide | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0000194.1 |  | 0.22 | Polyketide | actinorhodin | Streptomyces coelicolor A3(2)

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002008.1 |  | 0.63 | Other | aryl polyenes | Xenorhabdus doucetiae
BGC0000836.1 |  | 0.62 | Other | APE Ec | Escherichia coli CFT073
BGC0000837.1 |  | 0.59 | Other | APE Vf | Aliivibrio fischeri ES114
BGC0000221.1 |  | 0.59 | Polyketide | erdacin | uncultured soil bacterium V167
BGC0001723.1 |  | 0.58 | Polyketide | oviedomycin | Streptomyces antibioticus
BGC0002029.1 |  | 0.57 | Other | bagremycin A, bagremycin B, bagremycin C, bagremycin E, bagremycin F, bagremycin G, ferroverdin A, ferroverdin B, ferroverdin C | Streptomyces lunaelactis
BGC0001592.1 |  | 0.57 | Other | ferroverdin | Streptomyces lunaelactis
BGC0000889.1 |  | 0.56 | Other | bagremycin A, bagremycin B | Streptomyces sp. WK-5344
BGC0000234.1 |  | 0.56 | Polyketide | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0000194.1 |  | 0.55 | Polyketide | actinorhodin | Streptomyces coelicolor A3(2)

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.
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
NC_008345.1 - Region 2 - RiPP-like
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: 1,060,404 - 1,068,175 nt. (total: 7,772 nt) Show pHMM detection rules used
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)

#### 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
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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001589.1 |  | 0.16 | Saccharide | exopolysaccharides | Burkholderia cenocepacia J2315
BGC0001588.1 |  | 0.16 | Saccharide | exopolysaccharides | Burkholderia pseudomallei 1026b
BGC0001120.1 |  | 0.14 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001838.1 |  | 0.05 | NRP | WLIP | Pseudomonas putida
BGC0000080.1 |  | 0.05 | Polyketide | jerangolid A, jerangolid D | Sorangium cellulosum
BGC0002025.1 |  | 0.04 | NRP | thaxteramide C | Jahnella sp. MSr9139
BGC0001093.1 |  | 0.04 | NRP, Polyketide | disorazol A | Sorangium cellulosum

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001589.1 |  | 0.46 | Saccharide | exopolysaccharides | Burkholderia cenocepacia J2315
BGC0001588.1 |  | 0.46 | Saccharide | exopolysaccharides | Burkholderia pseudomallei 1026b
BGC0001120.1 |  | 0.44 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001838.1 |  | 0.24 | NRP | WLIP | Pseudomonas putida
BGC0000080.1 |  | 0.21 | Polyketide | jerangolid A, jerangolid D | Sorangium cellulosum
BGC0002025.1 |  | 0.19 | NRP | thaxteramide C | Jahnella sp. MSr9139
BGC0001093.1 |  | 0.18 | NRP, Polyketide | disorazol A | Sorangium cellulosum

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
NC_008345.1 - Region 3 - PUFA,hglE-KS
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: 1,411,202 - 1,467,108 nt. (total: 55,907 nt) Show pHMM detection rules used
PUFA: PUFA_KS
hglE-KS: (hglE or hglD)

#### 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
NRPS/PKS domains
MIBiG comparison
KnownClusterBlast
NRPS/PKS modules
Pfam domains
TIGRFAM domains
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 glossary is available here.
Selected features only
Show module 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 | PUFA | hglE-KS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000861.1 |  |  | 0.92 | Other | eicosapentaenoic acid | Shewanella sp. BR-2
BGC0000862.1 |  |  | 0.68 | Other | eicosapentaenoic acid | Shewanella pneumatophori
BGC0000863.1 |  |  | 0.61 | Other | eicosapentaenoic acid | Pseudoalteromonas sp. DS-12
BGC0000284.1 |  |  | 0.46 | Polyketide | phenolic lipids | Azotobacter vinelandii DJ
BGC0000869.1 |  |  | 0.45 | Other | heterocyst glycolipids | Nostoc sp. 'Peltigera membranacea cyanobiont'
BGC0000865.1 |  |  | 0.39 | Other | eicoseicosapentaenoic acid | Photobacterium profundum SS9
BGC0000864.1 |  |  | 0.39 | Other | eicosapentaenoic acid-like compound | Moritella marina ATCC 15381
BGC0001872.1 |  |  | 0.38 | Polyketide | fabclavine-polyamine | Xenorhabdus bovienii SS-2004
BGC0000044.1 |  |  | 0.35 | Polyketide | dawenol | Stigmatella aurantiaca DW4/3-1
BGC0001264.1 |  |  | 0.31 | Polyketide | betaenone A, betaenone B, betaenone C | Phoma betae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000861.1 |  | 0.76 | Other | eicosapentaenoic acid | Shewanella sp. BR-2
BGC0000862.1 |  | 0.67 | Other | eicosapentaenoic acid | Shewanella pneumatophori
BGC0000863.1 |  | 0.64 | Other | eicosapentaenoic acid | Pseudoalteromonas sp. DS-12
BGC0000284.1 |  | 0.56 | Polyketide | phenolic lipids | Azotobacter vinelandii DJ
BGC0000869.1 |  | 0.55 | Other | heterocyst glycolipids | Nostoc sp. 'Peltigera membranacea cyanobiont'
BGC0000865.1 |  | 0.52 | Other | eicoseicosapentaenoic acid | Photobacterium profundum SS9
BGC0000864.1 |  | 0.52 | Other | eicosapentaenoic acid-like compound | Moritella marina ATCC 15381
BGC0001872.1 |  | 0.51 | Polyketide | fabclavine-polyamine | Xenorhabdus bovienii SS-2004
BGC0000044.1 |  | 0.49 | Polyketide | dawenol | Stigmatella aurantiaca DW4/3-1
BGC0001264.1 |  | 0.46 | Polyketide | betaenone A, betaenone B, betaenone C | Phoma betae

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.
Module view
Shows module structures for each candidate in NRPS- and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here.
Legend
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
NRPS/PKS products
NRPS/PKS monomers
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 3, location 1411201 - 1467108:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 5, location 1419245 - 1467108:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (mal)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS monomer predictions
Shows the predicted monomers for each adynelation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).

ctg1_1226: pk
  PKS_AT (322..625): pk
  ATSignature: (unknown)
  No matches above 50%
  minowa: Isobutyryl-CoA
  Prediction, score:
    Isobutyryl-CoA: 13.8
    Malonyl-CoA: 8.7
    trans-1,2-CPDA: 0.0
    inactive: 0.0
    fatty_acid: 0.0
    Propionyl-CoA: 0.0
    Methylmalonyl-CoA: 0.0
    Methoxymalonyl-CoA: 0.0
    Ethylmalonyl-CoA: 0.0
    CHC-CoA: 0.0
    Benzoyl-CoA: 0.0
    Acetyl-CoA: 0.0
    3-Methylbutyryl-CoA: 0.0
    2-Methylbutyryl-CoA: 0.0
ctg1_1227: mal
  PKS_AT (601..914): mal
  ATSignature: Malonyl-CoA
  Top 3 matches:
    Malonyl-CoA: 79.2%
    inactive: 70.8%
    2-Rhyd-Malonyl-CoA: 54.2%
  minowa: Malonyl-CoA
  Prediction, score:
    Malonyl-CoA: 85.8
    inactive: 35.7
    Methoxymalonyl-CoA: 30.1
    fatty_acid: 19.0
    Methylmalonyl-CoA: 18.7
    Isobutyryl-CoA: 17.8
    Propionyl-CoA: 17.6
    CHC-CoA: 10.2
    trans-1,2-CPDA: 0.0
    Ethylmalonyl-CoA: 0.0
    Benzoyl-CoA: 0.0
    Acetyl-CoA: 0.0
    3-Methylbutyryl-CoA: 0.0
    2-Methylbutyryl-CoA: 0.0

NC_008345.1 - Region 4 - RiPP-like
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: 2,871,459 - 2,882,322 nt. (total: 10,864 nt) Show pHMM detection rules used
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)

#### 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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.18 | Other | nucleocidin | Streptomyces calvus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.49 | Other | nucleocidin | Streptomyces calvus

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
NC_008345.1 - Region 5 - 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: 3,267,535 - 3,296,946 nt. (total: 29,412 nt) Show pHMM detection rules used
betalactone: (HMGL-like and AMP-binding)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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 | betalactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001778.1 |  | 0.29 | Other | showdomycin | Streptomyces showdoensis
BGC0000234.1 |  | 0.20 | Polyketide | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0001465.1 |  | 0.20 | Other | bromopyrroles/bromophenols | Marinomonas mediterranea MMB-1
BGC0000890.1 |  | 0.20 | Other (Aminocoumarin) | pentabromopseudilin | Pseudoalteromonas phenolica O-BC30
BGC0000891.1 |  | 0.20 | Other (Aminocoumarin) | pentabromopseudilin | Pseudoalteromonas luteoviolacea 2ta16
BGC0000260.1 |  | 0.18 | Polyketide | prodigiosin | Hahella chejuensis KCTC 2396
BGC0000791.1 |  | 0.17 | Saccharide | O-antigen | Cronobacter sakazakii
BGC0000733.1 |  | 0.17 | Saccharide | capsular polysaccharide | Klebsiella pneumoniae
BGC0000732.1 |  | 0.17 | Saccharide | capsular polysaccharide | Raoultella planticola
BGC0000730.1 |  | 0.17 | Saccharide | capsular polysaccharide | Klebsiella pneumoniae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001778.1 |  | 0.62 | Other | showdomycin | Streptomyces showdoensis
BGC0000234.1 |  | 0.53 | Polyketide | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0001465.1 |  | 0.52 | Other | bromopyrroles/bromophenols | Marinomonas mediterranea MMB-1
BGC0000890.1 |  | 0.52 | Other (Aminocoumarin) | pentabromopseudilin | Pseudoalteromonas phenolica O-BC30
BGC0000891.1 |  | 0.52 | Other (Aminocoumarin) | pentabromopseudilin | Pseudoalteromonas luteoviolacea 2ta16
BGC0000260.1 |  | 0.50 | Polyketide | prodigiosin | Hahella chejuensis KCTC 2396
BGC0000791.1 |  | 0.48 | Saccharide | O-antigen | Cronobacter sakazakii
BGC0000733.1 |  | 0.48 | Saccharide | capsular polysaccharide | Klebsiella pneumoniae
BGC0000732.1 |  | 0.48 | Saccharide | capsular polysaccharide | Raoultella planticola
BGC0000730.1 |  | 0.48 | Saccharide | capsular polysaccharide | Klebsiella pneumoniae

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.
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