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Overview
1.1
1.2
1.3
1.4
1.5
2.1

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

NC_007164.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | T1PKS | 143,493 | 188,556 |
Region 1.2 | NAPAA | 315,373 | 349,272 | CDA1b / CDA2a / CDA2b / CDA3a / CDA3b / CDA4a / CDA4b | NRP:Ca+-dependent lipopeptide | 5%
Region 1.3 | terpene | 613,620 | 634,612 |
Region 1.4 | CDPS | 1,090,350 | 1,111,000 |
Region 1.5 | NRPS | 2,049,173 | 2,134,573 | coelichelin | NRP | 45%

NC_003080.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 2.1 | RiPP-like | 3,753 | 13,911 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | T1PKS | 143,493 | 188,556 |
Region 1.2 | NAPAA | 315,373 | 349,272 | CDA1b / CDA2a / CDA2b / CDA3a / CDA3b / CDA4a / CDA4b | NRP:Ca+-dependent lipopeptide | 5%
Region 1.3 | terpene | 613,620 | 634,612 |
Region 1.4 | CDPS | 1,090,350 | 1,111,000 |
Region 1.5 | NRPS | 2,049,173 | 2,134,573 | coelichelin | NRP | 45%
Region 2.1 | RiPP-like | 3,753 | 13,911 |

Compact view
NC_007164.1 - Region 1 - T1PKS
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: 143,493 - 188,556 nt. (total: 45,064 nt) Show pHMM detection rules used
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

#### 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 | T1PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001909.1 |  | 0.31 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0000099.1 |  | 0.26 | Polyketide | monascorubrin | Talaromyces marneffei
BGC0001338.1 |  | 0.24 | Polyketide | citrinin | Monascus ruber
BGC0001831.1 |  | 0.24 | Polyketide | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0001977.1 |  | 0.24 | Other | eupenifeldin | Phoma sp.
BGC0001976.1 |  | 0.24 | Terpene | eupenifeldin | Phoma sp.
BGC0000027.1 |  | 0.24 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus
BGC0000154.1 |  | 0.23 | Polyketide | stipitatic acid | Talaromyces stipitatus ATCC 10500
BGC0000862.1 |  | 0.23 | Other | eicosapentaenoic acid | Shewanella pneumatophori
BGC0001827.1 |  | 0.23 | Polyketide | xenovulene A | Sarocladium sp. 'schorii'

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001909.1 |  | 0.65 | Polyketide | strobilurin | Strobilurus tenacellus
BGC0000099.1 |  | 0.60 | Polyketide | monascorubrin | Talaromyces marneffei
BGC0001338.1 |  | 0.58 | Polyketide | citrinin | Monascus ruber
BGC0001831.1 |  | 0.58 | Polyketide | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0001977.1 |  | 0.58 | Other | eupenifeldin | Phoma sp.
BGC0001976.1 |  | 0.58 | Terpene | eupenifeldin | Phoma sp.
BGC0000027.1 |  | 0.57 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus
BGC0000154.1 |  | 0.57 | Polyketide | stipitatic acid | Talaromyces stipitatus ATCC 10500
BGC0000862.1 |  | 0.56 | Other | eicosapentaenoic acid | Shewanella pneumatophori
BGC0001827.1 |  | 0.56 | Polyketide | xenovulene A | Sarocladium sp. 'schorii'

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 1, location 143492 - 188556:
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_140: pk
  CAL_domain (65..536): pk
  minowa: Acetyl-CoA
  Prediction, score:
    Acetyl-CoA: 30.3
    fatty_acid: 17.6
    AHBA: 6.3
    NH2: 5.6
    shikimic_acid: 0.0
ctg1_141: mal
  PKS_AT (678..979): mal
  ATSignature: Malonyl-CoA
  Top 3 matches:
    Malonyl-CoA: 62.5%
    Methylmalonyl-CoA: 54.2%
  minowa: fatty_acid
  Prediction, score:
    fatty_acid: 108.5
    Methylmalonyl-CoA: 82.7
    Malonyl-CoA: 81.4
    Methoxymalonyl-CoA: 76.3
    Propionyl-CoA: 66.0
    Ethylmalonyl-CoA: 64.3
    2-Methylbutyryl-CoA: 53.8
    trans-1,2-CPDA: 42.4
    Acetyl-CoA: 42.4
    Isobutyryl-CoA: 40.3
    CHC-CoA: 32.2
    Benzoyl-CoA: 12.9
    3-Methylbutyryl-CoA: 10.8
    inactive: 9.3

NC_007164.1 - Region 2 - NAPAA
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: 315,373 - 349,272 nt. (total: 33,900 nt) Show pHMM detection rules used
NAPAA: (AMP-binding and PP-binding and TIGR02353)

#### 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 | NAPAA | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000375.1 |  | 0.21 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.21 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001399.1 |  | 0.20 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001758.1 |  | 0.18 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.18 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.1 |  | 0.18 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001131.1 |  | 0.18 | NRP | ambactin | Xenorhabdus miraniensis
BGC0001900.1 |  | 0.18 | NRP | fragin | Burkholderia cenocepacia H111
BGC0001132.1 |  | 0.18 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001135.1 |  | 0.18 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000375.1 |  | 0.54 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.54 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001399.1 |  | 0.53 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001758.1 |  | 0.50 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.50 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001128.1 |  | 0.50 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001131.1 |  | 0.49 | NRP | ambactin | Xenorhabdus miraniensis
BGC0001900.1 |  | 0.49 | NRP | fragin | Burkholderia cenocepacia H111
BGC0001132.1 |  | 0.49 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001135.1 |  | 0.49 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis

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 2, location 315372 - 349272:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

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_274: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (24..402): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      N/A
    Small clusters prediction:
      gly, ala
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DAESIGtVvK
    Nearest Stachelhaus code:
      lys
    Stachelhaus code match:
      80% (moderate)

NC_007164.1 - 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: 613,620 - 634,612 nt. (total: 20,993 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 |  | 0.26 | Terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0001514.1 |  | 0.20 | Other | aristeromycin | Streptomyces citricolor
BGC0000703.1 |  | 0.19 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000637.1 |  | 0.19 | Terpene | carotenoid | Corynebacterium glutamicum
BGC0000783.1 |  | 0.17 | Saccharide | O-antigen | Xanthomonas oryzae pv. oryzae
BGC0000644.1 |  | 0.16 | Terpene | carotenoid | Dietzia sp. CQ4
BGC0000780.1 |  | 0.15 | Saccharide | O&K-antigen | Vibrio parahaemolyticus
BGC0000252.1 |  | 0.15 | Polyketide | nonactin | Streptomyces griseus subsp. griseus
BGC0000207.1 |  | 0.14 | Polyketide | chartreusin | Streptomyces chartreusis
BGC0000636.1 |  | 0.13 | Terpene | carotenoid | Brevibacterium linens

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000650.1 |  | 0.60 | Terpene | carotenoid | Algoriphagus sp. KK10202C
BGC0001514.1 |  | 0.52 | Other | aristeromycin | Streptomyces citricolor
BGC0000703.1 |  | 0.51 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0000637.1 |  | 0.51 | Terpene | carotenoid | Corynebacterium glutamicum
BGC0000783.1 |  | 0.48 | Saccharide | O-antigen | Xanthomonas oryzae pv. oryzae
BGC0000644.1 |  | 0.47 | Terpene | carotenoid | Dietzia sp. CQ4
BGC0000780.1 |  | 0.45 | Saccharide | O&K-antigen | Vibrio parahaemolyticus
BGC0000252.1 |  | 0.45 | Polyketide | nonactin | Streptomyces griseus subsp. griseus
BGC0000207.1 |  | 0.43 | Polyketide | chartreusin | Streptomyces chartreusis
BGC0000636.1 |  | 0.42 | Terpene | carotenoid | Brevibacterium linens

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_007164.1 - Region 4 - CDPS
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: 1,090,350 - 1,111,000 nt. (total: 20,651 nt) Show pHMM detection rules used
CDPS: (CDPS or cycdipepsynth)

#### 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 | CDPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001334.1 |  | 0.21 | Alkaloid | caldoniamide A, cladoniamide B, cladoniamide C7, cladoniamide D, cladoniamide E, cladoniamide F, cladoniamide G | Streptomyces uncialis
BGC0001739.1 |  | 0.19 | Other | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0000836.1 |  | 0.16 | Other | APE Ec | Escherichia coli CFT073
BGC0002008.1 |  | 0.16 | Other | aryl polyenes | Xenorhabdus doucetiae
BGC0000937.1 |  | 0.15 | Other | fosfazinomycin A | Streptomyces sp. WM6372
BGC0001904.1 |  | 0.14 | Polyketide | fluostatin | Micromonospora rosaria
BGC0000845.1 |  | 0.14 | Other (Non-NRP beta-lactam) | clavulanic acid | Streptomyces clavuligerus ATCC 27064
BGC0000780.1 |  | 0.14 | Saccharide | O&K-antigen | Vibrio parahaemolyticus
BGC0000651.1 |  | 0.13 | Terpene | KS-505a | Streptomyces argenteolus
BGC0000220.1 |  | 0.13 | Polyketide | enterocin | Streptomyces maritimus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001334.1 |  | 0.53 | Alkaloid | caldoniamide A, cladoniamide B, cladoniamide C7, cladoniamide D, cladoniamide E, cladoniamide F, cladoniamide G | Streptomyces uncialis
BGC0001739.1 |  | 0.52 | Other | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0000836.1 |  | 0.46 | Other | APE Ec | Escherichia coli CFT073
BGC0002008.1 |  | 0.46 | Other | aryl polyenes | Xenorhabdus doucetiae
BGC0000937.1 |  | 0.45 | Other | fosfazinomycin A | Streptomyces sp. WM6372
BGC0001904.1 |  | 0.44 | Polyketide | fluostatin | Micromonospora rosaria
BGC0000845.1 |  | 0.43 | Other (Non-NRP beta-lactam) | clavulanic acid | Streptomyces clavuligerus ATCC 27064
BGC0000780.1 |  | 0.43 | Saccharide | O&K-antigen | Vibrio parahaemolyticus
BGC0000651.1 |  | 0.42 | Terpene | KS-505a | Streptomyces argenteolus
BGC0000220.1 |  | 0.42 | Polyketide | enterocin | Streptomyces maritimus

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_007164.1 - Region 5 - 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: 2,049,173 - 2,134,573 nt. (total: 85,401 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 | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000457.1 |  |  | 0.51 | NRP | vicibactin | Rhizobium etli CFN 42
BGC0001833.1 |  |  | 0.44 | NRP | icosalide A, icosalide B | Burkholderia gladioli
BGC0000417.1 |  |  | 0.44 | NRP | rhodochelin | Rhodococcus jostii RHA1
BGC0001758.1 |  |  | 0.43 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001825.1 |  |  | 0.43 | NRP | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.1 |  |  | 0.43 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000410.1 |  |  | 0.43 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001636.1 |  |  | 0.43 | NRP | KK-1 | Curvularia clavata
BGC0000349.1 |  |  | 0.39 | NRP | erythrochelin | Saccharopolyspora erythraea NRRL 2338
BGC0001790.1 |  |  | 0.39 | NRP | sulfazecin | Pseudomonas acidophila

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000417.1 |  | 0.61 | NRP | rhodochelin | Rhodococcus jostii RHA1
BGC0000389.1 |  | 0.60 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0000342.1 |  | 0.60 | NRP | enniatin | Fusarium equiseti
BGC0001873.1 |  | 0.60 | NRP | pyrrolizixenamide A | Xenorhabdus szentirmaii DSM 16338
BGC0000313.1 |  | 0.59 | NRP | beauvericin | Beauveria bassiana
BGC0000901.1 |  | 0.59 | Other | ferrichrome | Aspergillus niger
BGC0001399.1 |  | 0.59 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001250.1 |  | 0.59 | NRP | epichloenin A | Epichloe festucae
BGC0001251.1 |  | 0.59 | NRP | epichloenin A | Epichloe festucae
BGC0001609.1 |  | 0.58 | NRP | gliovirin | Trichoderma virens Gv29-8

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 5, location 2049172 - 2134573:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-orn - thr - orn) + (X)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 6, location 2049172 - 2099294:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (D-orn - thr - orn)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 7, location 2087208 - 2134573:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

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_1796: orn - thr - orn
  Search NORINE for peptide: strict or relaxed
  AMP-binding (59..445): orn
  NRPSPredictor2: orn
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      orn, lys, arg
    Small clusters prediction:
      orn, horn
    Single AA prediction:
      orn
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DINYWGGIGK
    Nearest Stachelhaus code:
      orn
    Stachelhaus code match:
      100% (strong)
  AMP-binding (1566..1969): thr
  NRPSPredictor2: thr
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      ser, thr, dhpg, hpg
    Small clusters prediction:
      thr
    Single AA prediction:
      thr
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DFWSiGMVHK
    Nearest Stachelhaus code:
      thr
    Stachelhaus code match:
      90% (moderate)
  AMP-binding (3036..3432): orn
  NRPSPredictor2: orn
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      orn, lys, arg
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DMwNLGLINK
    Nearest Stachelhaus code:
      orn
    Stachelhaus code match:
      90% (moderate)
ctg1_1828: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (545..897): 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:
      DAfDvGaVDK
    Nearest Stachelhaus code:
      gln
    Stachelhaus code match:
      70% (weak)
ctg1_1830: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (1..404): X
  NRPSPredictor2: hydrophilic
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    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)
ctg1_1837: dhb
  Search NORINE for peptide: strict or relaxed
  AMP-binding (646..1060): 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:
      TlPlwGVVNK
    Nearest Stachelhaus code:
      dhb
    Stachelhaus code match:
      70% (weak)

NC_003080.1 - Region 1 - 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: 3,753 - 13,911 nt. (total: 10,159 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
--- | --- | --- | --- | --- | ---
BGC0000522.1 |  | 0.40 | RiPP | lacticin Z | Lactococcus lactis
BGC0000620.1 |  | 0.39 | RiPP | lacticin Q | Lactococcus lactis
BGC0000616.1 |  | 0.16 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000486.1 |  | 0.16 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0000554.1 |  | 0.16 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001639.1 |  | 0.15 | RiPP | klebsidin | Klebsiella pneumoniae
BGC0000243.1 |  | 0.15 | Polyketide | macrotetrolide | Streptomyces griseus subsp. griseus
BGC0001138.1 |  | 0.14 | Other (Nucleoside) | a201a | Marinactinospora thermotolerans
BGC0001120.1 |  | 0.14 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001684.1 |  | 0.14 | Other | N-acyloxyacyl glutamine | Klebsiella variicola

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000522.1 |  | 0.72 | RiPP | lacticin Z | Lactococcus lactis
BGC0000620.1 |  | 0.71 | RiPP | lacticin Q | Lactococcus lactis
BGC0000616.1 |  | 0.47 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000486.1 |  | 0.46 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0000554.1 |  | 0.46 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001639.1 |  | 0.45 | RiPP | klebsidin | Klebsiella pneumoniae
BGC0000243.1 |  | 0.44 | Polyketide | macrotetrolide | Streptomyces griseus subsp. griseus
BGC0001138.1 |  | 0.44 | Other (Nucleoside) | a201a | Marinactinospora thermotolerans
BGC0001120.1 |  | 0.43 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001684.1 |  | 0.43 | Other | N-acyloxyacyl glutamine | Klebsiella variicola

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