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Overview
1.1
1.2
1.3

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

NC_012704.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | T3PKS | 17,094 | 58,287 | endophenazine A / endophenazine B | Other:Phenazine | 16%
Region 2 | terpene | 1,577,131 | 1,598,183 |
Region 3 | NRPS | 2,101,818 | 2,149,434 |

NC_012704.1 - 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: 17,094 - 58,287 nt. (total: 41,194 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
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
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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002009.1 |  | 0.18 | Polyketide | kanglemycin A, kanglemycin V1, kanglemycin V2 | Amycolatopsis vancoresmycina
BGC0000286.1 |  | 0.18 | Polyketide | viguiepinol | Streptomyces sp. KO-3988
BGC0000673.1 |  | 0.16 | Terpene | pimara-8(14),15-diene | Aspergillus nidulans FGSC A4
BGC0001947.1 |  | 0.15 | Saccharide | K53 capsular polysaccharide | Acinetobacter baumannii
BGC0001080.1 |  | 0.13 | Other (Phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0000640.1 |  | 0.13 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000313.1 |  | 0.12 | NRP | beauvericin | Beauveria bassiana
BGC0000934.1 |  | 0.12 | 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
BGC0000642.1 |  | 0.10 | Terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000635.1 |  | 0.10 | Terpene | carotenoid | Paracoccus sp. N81106

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002009.1 |  | 0.49 | Polyketide | kanglemycin A, kanglemycin V1, kanglemycin V2 | Amycolatopsis vancoresmycina
BGC0000286.1 |  | 0.49 | Polyketide | viguiepinol | Streptomyces sp. KO-3988
BGC0000673.1 |  | 0.47 | Terpene | pimara-8(14),15-diene | Aspergillus nidulans FGSC A4
BGC0001947.1 |  | 0.45 | Saccharide | K53 capsular polysaccharide | Acinetobacter baumannii
BGC0001080.1 |  | 0.41 | Other (Phenazine) | endophenazine A, endophenazine B | Streptomyces anulatus
BGC0000640.1 |  | 0.41 | Terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000313.1 |  | 0.40 | NRP | beauvericin | Beauveria bassiana
BGC0000934.1 |  | 0.40 | 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
BGC0000642.1 |  | 0.37 | Terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000635.1 |  | 0.36 | Terpene | carotenoid | Paracoccus sp. N81106

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_012704.1 - Region 2 - 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: 1,577,131 - 1,598,183 nt. (total: 21,053 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
--- | --- | --- | --- | --- | ---
BGC0000650.1 |  | 0.27 | Terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0000637.1 |  | 0.26 | Terpene | carotenoid | Corynebacterium glutamicum
BGC0000644.1 |  | 0.22 | Terpene | carotenoid | Dietzia sp. CQ4
BGC0000646.1 |  | 0.20 | Terpene | β-carotein | uncultured bacterium
BGC0000636.1 |  | 0.18 | Terpene | carotenoid | Brevibacterium linens
BGC0000703.1 |  | 0.16 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000706.1 |  | 0.16 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000804.1 |  | 0.16 | Saccharide | acarviostatin I03, acarviostatin II03, acarviostatin III03, acarviostatin IV03 | Streptomyces coelicoflavus ZG0656
BGC0001521.1 |  | 0.14 | NRP | auriculamide | Herpetosiphon aurantiacus DSM 785
BGC0000805.1 |  | 0.13 | Saccharide | moenomycin | Streptomyces viridosporus ATCC 14672

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000650.1 |  | 0.60 | Terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0000637.1 |  | 0.60 | Terpene | carotenoid | Corynebacterium glutamicum
BGC0000644.1 |  | 0.55 | Terpene | carotenoid | Dietzia sp. CQ4
BGC0000646.1 |  | 0.52 | Terpene | β-carotein | uncultured bacterium
BGC0000636.1 |  | 0.49 | Terpene | carotenoid | Brevibacterium linens
BGC0000703.1 |  | 0.47 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000706.1 |  | 0.47 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000804.1 |  | 0.46 | Saccharide | acarviostatin I03, acarviostatin II03, acarviostatin III03, acarviostatin IV03 | Streptomyces coelicoflavus ZG0656
BGC0001521.1 |  | 0.43 | NRP | auriculamide | Herpetosiphon aurantiacus DSM 785
BGC0000805.1 |  | 0.42 | Saccharide | moenomycin | Streptomyces viridosporus ATCC 14672

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_012704.1 - Region 3 - NRPS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 2,101,818 - 2,149,434 nt. (total: 47,617 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX))

#### 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 | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001251.1 |  | 0.27 | NRP | epichloenin A | Epichloe festucae
BGC0001250.1 |  | 0.27 | NRP | epichloenin A | Epichloe festucae
BGC0001609.1 |  | 0.24 | NRP | gliovirin | Trichoderma virens Gv29-8
BGC0001758.1 |  | 0.22 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001479.1 |  | 0.22 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001636.1 |  | 0.22 | NRP | KK-1 | Curvularia clavata
BGC0001249.1 |  | 0.22 | NRP | dimethylcoprogen | Alternaria alternata
BGC0000883.1 |  | 0.21 | Other | arginomycin | Streptomyces arginensis
BGC0001833.1 |  | 0.21 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0000427.1 |  | 0.21 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001251.1 |  | 0.61 | NRP | epichloenin A | Epichloe festucae
BGC0001250.1 |  | 0.61 | NRP | epichloenin A | Epichloe festucae
BGC0001609.1 |  | 0.58 | NRP | gliovirin | Trichoderma virens Gv29-8
BGC0001758.1 |  | 0.55 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001479.1 |  | 0.55 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001636.1 |  | 0.55 | NRP | KK-1 | Curvularia clavata
BGC0001249.1 |  | 0.55 | NRP | dimethylcoprogen | Alternaria alternata
BGC0000883.1 |  | 0.54 | Other | arginomycin | Streptomyces arginensis
BGC0001833.1 |  | 0.54 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0000427.1 |  | 0.54 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413

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.

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 2101817 - 2149434:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (gln)

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_1829: dhb
  Search NORINE for peptide: strict or relaxed
  AMP-binding (47..467): dhb
  NRPSPredictor2: dhb
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aromatic
    Large clusters prediction:
      dhb, sal
    Small clusters prediction:
      dhb, sal
    Single AA prediction:
      dhb
  Stachelhaus prediction details:
    Stachelhaus sequence:
      TMPawGVVNK
    Nearest Stachelhaus code:
      dhb
    Stachelhaus code match:
      80% (moderate)
ctg1_1830: gln
  Search NORINE for peptide: strict or relaxed
  AMP-binding (547..947): gln
  NRPSPredictor2: gln
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DAiDLGmVDK
    Nearest Stachelhaus code:
      gln
    Stachelhaus code match:
      80% (moderate)
ctg1_1833: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (26..522): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVasLgLmDK
    Nearest Stachelhaus code:
      ser
    Stachelhaus code match:
      60% (weak)