Select genomic region:
Overview
1.1
1.2
1.3
1.4
1.5
1.6
1.7

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

NZ_CP031146.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | RiPP-like | 153,737 | 164,138 |
Region 2 | NRPS-like | 399,593 | 439,577 | entolysin | NRP | 30%
Region 3 | ranthipeptide | 831,509 | 852,939 | pyoverdin | NRP | 8%
Region 4 | RiPP-like | 882,736 | 893,575 |
Region 5 | NRPS | 1,266,439 | 1,338,948 | pyoverdin | NRP | 8%
Region 6 | NAGGN | 2,090,632 | 2,105,425 |
Region 7 | redox-cofactor | 4,067,866 | 4,090,013 | lankacidin C | NRP + Polyketide | 13%

NZ_CP031146.1 - 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: 153,737 - 164,138 nt. (total: 10,402 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
--- | --- | --- | --- | --- | ---
BGC0001285.1 |  | 0.05 | Other (Fatty acid) | pseudopyronine A, pseudopyronine B | Pseudomonas putida

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001285.1 |  | 0.21 | Other (Fatty acid) | pseudopyronine A, pseudopyronine B | Pseudomonas putida

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_CP031146.1 - Region 2 - NRPS-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: 399,593 - 439,577 nt. (total: 39,985 nt) Show pHMM detection rules used
NRPS-like: cds((PP-binding or NAD_binding_4) 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-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000375.1 |  | 0.32 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.32 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000900.1 |  | 0.28 | Other | ferrichrome | Aspergillus oryzae
BGC0001249.1 |  | 0.27 | NRP | dimethylcoprogen | Alternaria alternata
BGC0001561.1 |  | 0.27 | NRP | curacomycin | Streptomyces curacoi
BGC0000979.1 |  | 0.25 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 10E9
BGC0000980.1 |  | 0.25 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 22D11
BGC0001479.1 |  | 0.22 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001717.1 |  | 0.22 | Alkaloid | okaramine B | Penicillium simplicissimum
BGC0001718.1 |  | 0.21 | NRP | okaramine D | Aspergillus aculeatus ATCC 16872

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000375.1 |  | 0.66 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000427.1 |  | 0.65 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000900.1 |  | 0.61 | Other | ferrichrome | Aspergillus oryzae
BGC0001249.1 |  | 0.61 | NRP | dimethylcoprogen | Alternaria alternata
BGC0001561.1 |  | 0.61 | NRP | curacomycin | Streptomyces curacoi
BGC0000979.1 |  | 0.59 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 10E9
BGC0000980.1 |  | 0.59 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 22D11
BGC0001479.1 |  | 0.56 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001717.1 |  | 0.55 | Alkaloid | okaramine B | Penicillium simplicissimum
BGC0001718.1 |  | 0.53 | NRP | okaramine D | Aspergillus aculeatus ATCC 16872

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 399592 - 439577:
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_371: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (23..430): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DPRHfGfqaK
    Nearest Stachelhaus code:
      glu
    Stachelhaus code match:
      60% (weak)

NZ_CP031146.1 - Region 3 - ranthipeptide
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: 831,509 - 852,939 nt. (total: 21,431 nt) Show pHMM detection rules used
ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or YcaO or TIGR03882)))

#### 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 | ranthipeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001733.1 |  | 0.19 | RiPP | PcpA | Pleurocapsa sp. PCC 7327
BGC0001897.1 |  | 0.18 | Polyketide | cepacin A | Burkholderia ambifaria IOP40-10
BGC0000551.1 |  | 0.16 | RiPP | SapB | Streptomyces coelicolor A3(2)
BGC0000519.1 |  | 0.16 | RiPP | labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3 | Actinomadura namibiensis
BGC0001551.1 |  | 0.16 | RiPP | citrulassin E | Streptomyces glaucescens
BGC0001589.1 |  | 0.16 | Saccharide | exopolysaccharides | Burkholderia cenocepacia J2315
BGC0001526.1 |  | 0.16 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0000501.1 |  | 0.16 | RiPP | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001525.1 |  | 0.16 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001588.1 |  | 0.16 | Saccharide | exopolysaccharides | Burkholderia pseudomallei 1026b

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001733.1 |  | 0.51 | RiPP | PcpA | Pleurocapsa sp. PCC 7327
BGC0001897.1 |  | 0.49 | Polyketide | cepacin A | Burkholderia ambifaria IOP40-10
BGC0000551.1 |  | 0.47 | RiPP | SapB | Streptomyces coelicolor A3(2)
BGC0000519.1 |  | 0.47 | RiPP | labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3 | Actinomadura namibiensis
BGC0001551.1 |  | 0.47 | RiPP | citrulassin E | Streptomyces glaucescens
BGC0001589.1 |  | 0.47 | Saccharide | exopolysaccharides | Burkholderia cenocepacia J2315
BGC0001526.1 |  | 0.47 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0000501.1 |  | 0.46 | RiPP | catenulipeptin | Catenulispora acidiphila DSM 44928
BGC0001525.1 |  | 0.46 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001588.1 |  | 0.46 | Saccharide | exopolysaccharides | Burkholderia pseudomallei 1026b

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
NZ_CP031146.1 - 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: 882,736 - 893,575 nt. (total: 10,840 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
--- | --- | --- | --- | --- | ---
BGC0001488.1 |  | 0.25 | Other | 4-formylaminooxyvinylglycine | Pseudomonas fluorescens WH6
BGC0001586.1 |  | 0.16 | Saccharide | EPS273 | Pseudomonas stutzeri
BGC0000287.1 |  | 0.08 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0000343.1 |  | 0.07 | NRP | enterobactin | Pseudomonas sp. J465
BGC0001533.1 |  | 0.04 | Polyketide | borrelidin | Streptomyces rochei
BGC0001096.1 |  | 0.04 | NRP, Polyketide | FR901464 | Pseudomonas sp. 2663
BGC0000995.1 |  | 0.04 | NRP, Polyketide | FR901464 | Pseudomonas sp. 2663
BGC0000031.1 |  | 0.04 | Polyketide | borrelidin | Streptomyces parvulus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001488.1 |  | 0.59 | Other | 4-formylaminooxyvinylglycine | Pseudomonas fluorescens WH6
BGC0001586.1 |  | 0.47 | Saccharide | EPS273 | Pseudomonas stutzeri
BGC0000287.1 |  | 0.31 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0000343.1 |  | 0.29 | NRP | enterobactin | Pseudomonas sp. J465
BGC0001533.1 |  | 0.18 | Polyketide | borrelidin | Streptomyces rochei
BGC0001096.1 |  | 0.17 | NRP, Polyketide | FR901464 | Pseudomonas sp. 2663
BGC0000995.1 |  | 0.17 | NRP, Polyketide | FR901464 | Pseudomonas sp. 2663
BGC0000031.1 |  | 0.17 | Polyketide | borrelidin | Streptomyces parvulus

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_CP031146.1 - 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: 1,266,439 - 1,338,948 nt. (total: 72,510 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
--- | --- | --- | --- | --- | ---
BGC0000426.1 |  | 0.38 | NRP | sevadicin | Paenibacillus larvae
BGC0000389.1 |  | 0.36 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0000331.1 |  | 0.34 | NRP | cyanopeptin | Planktothrix agardhii NIVA-CYA 116
BGC0001758.1 |  | 0.34 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001844.1 |  | 0.33 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001826.1 |  | 0.33 | NRP | xeneprotides A-C | Xenorhabdus sp. KJ12.1
BGC0000438.1 |  | 0.33 | NRP | syringopeptin 25A | Pseudomonas syringae pv. syringae
BGC0001131.1 |  | 0.33 | NRP | ambactin | Xenorhabdus miraniensis
BGC0001220.1 |  | 0.32 | NRP | aculeacin A | Aspergillus japonicus
BGC0001135.1 |  | 0.31 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000426.1 |  | 0.71 | NRP | sevadicin | Paenibacillus larvae
BGC0000389.1 |  | 0.69 | NRP | massetolide A | Pseudomonas fluorescens SS101
BGC0000331.1 |  | 0.67 | NRP | cyanopeptin | Planktothrix agardhii NIVA-CYA 116
BGC0001758.1 |  | 0.67 | NRP | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001844.1 |  | 0.66 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001826.1 |  | 0.66 | NRP | xeneprotides A-C | Xenorhabdus sp. KJ12.1
BGC0000438.1 |  | 0.66 | NRP | syringopeptin 25A | Pseudomonas syringae pv. syringae
BGC0001131.1 |  | 0.66 | NRP | ambactin | Xenorhabdus miraniensis
BGC0001220.1 |  | 0.65 | NRP | aculeacin A | Aspergillus japonicus
BGC0001135.1 |  | 0.65 | 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 5, location 1266438 - 1338948:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X) + (D-ser - gly - gly) + (X - ser - gly - D-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_1167: X - ser - gly - X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (526..924): X
  NRPSPredictor2: asp, asn, glu, gln, aad
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DGeacGgVtK
    Nearest Stachelhaus code:
      leu
    Stachelhaus code match:
      50% (weak)
  AMP-binding (1582..1980): ser
  NRPSPredictor2: ser
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      ser, thr, dhpg, hpg
    Small clusters prediction:
      ser
    Single AA prediction:
      ser
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVWHMSLIDK
    Nearest Stachelhaus code:
      ser
    Stachelhaus code match:
      100% (strong)
  AMP-binding (2636..3028): gly
  NRPSPredictor2: gly
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      gly, ala
    Single AA prediction:
      gly
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DILQLGLVWK
    Nearest Stachelhaus code:
      gly
    Stachelhaus code match:
      100% (strong)
  AMP-binding (3679..4078): X
  NRPSPredictor2: glu, gln
  SVM prediction details:
    Predicted physicochemical class:
      hydrophilic
    Large clusters prediction:
      asp, asn, glu, gln, aad
    Small clusters prediction:
      glu, gln
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DgEacgGITK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      60% (weak)
ctg1_1168: ser - gly - gly
  Search NORINE for peptide: strict or relaxed
  AMP-binding (515..912): ser
  NRPSPredictor2: ser
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      ser, thr, dhpg, hpg
    Small clusters prediction:
      ser
    Single AA prediction:
      ser
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DVWHMSLIDK
    Nearest Stachelhaus code:
      ser
    Stachelhaus code match:
      100% (strong)
  AMP-binding (1996..2388): gly
  NRPSPredictor2: gly
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      gly, ala
    Single AA prediction:
      gly
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DILQLGLVWK
    Nearest Stachelhaus code:
      gly
    Stachelhaus code match:
      100% (strong)
  AMP-binding (3040..3433): gly
  NRPSPredictor2: gly
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      gly, ala
    Single AA prediction:
      gly
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DILQLGLIWK
    Nearest Stachelhaus code:
      gly
    Stachelhaus code match:
      100% (strong)
ctg1_1169: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (430..819): X
  NRPSPredictor2: val, leu, ile, abu, iva
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      gly, ala, val, leu, ile, abu, iva
    Small clusters prediction:
      val, leu, ile, abu, iva
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DSaLvAEVwK
    Nearest Stachelhaus code:
      his
    Stachelhaus code match:
      70% (weak)
ctg1_1171: pk
  CAL_domain (38..474): pk
  minowa: NH2
  Prediction, score:
    NH2: 136.0
    shikimic_acid: 12.8
    AHBA: 9.9
    fatty_acid: 4.6
    Acetyl-CoA: -1.9

NZ_CP031146.1 - Region 6 - NAGGN
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: 2,090,632 - 2,105,425 nt. (total: 14,794 nt) Show pHMM detection rules used
NAGGN: ((TIGR03104 or cds(GATase_7 and Asn_synthase)) and TIGR03103 and (TIGR03106 or Peptidase_M42))

#### 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 | NAGGN | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000846.1 |  | 0.25 | Other | tabtoxin | Pseudomonas syringae
BGC0000888.1 |  | 0.21 | Other | bacilysin | Bacillus sp. CS93
BGC0001184.1 |  | 0.18 | Other | bacilysin | Bacillus velezensis FZB42
BGC0000937.1 |  | 0.17 | Other | fosfazinomycin A | Streptomyces sp. WM6372
BGC0001739.1 |  | 0.15 | Other | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0001374.1 |  | 0.14 | Other | thienodolin | Streptomyces albogriseolus
BGC0000781.1 |  | 0.14 | Saccharide | O-antigen | Pseudomonas aeruginosa
BGC0000845.1 |  | 0.14 | Other (Non-NRP beta-lactam) | clavulanic acid | Streptomyces clavuligerus ATCC 27064
BGC0000207.1 |  | 0.14 | Polyketide | chartreusin | Streptomyces chartreusis
BGC0001156.1 |  | 0.13 | Terpene | platencin | Streptomyces platensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000846.1 |  | 0.59 | Other | tabtoxin | Pseudomonas syringae
BGC0000888.1 |  | 0.53 | Other | bacilysin | Bacillus sp. CS93
BGC0001184.1 |  | 0.49 | Other | bacilysin | Bacillus velezensis FZB42
BGC0000937.1 |  | 0.48 | Other | fosfazinomycin A | Streptomyces sp. WM6372
BGC0001739.1 |  | 0.45 | Other | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0001374.1 |  | 0.43 | Other | thienodolin | Streptomyces albogriseolus
BGC0000781.1 |  | 0.43 | Saccharide | O-antigen | Pseudomonas aeruginosa
BGC0000845.1 |  | 0.43 | Other (Non-NRP beta-lactam) | clavulanic acid | Streptomyces clavuligerus ATCC 27064
BGC0000207.1 |  | 0.43 | Polyketide | chartreusin | Streptomyces chartreusis
BGC0001156.1 |  | 0.42 | Terpene | platencin | Streptomyces platensis

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_CP031146.1 - Region 7 - redox-cofactor
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: 4,067,866 - 4,090,013 nt. (total: 22,148 nt) Show pHMM detection rules used
redox-cofactor: (cds(PF04055 and (TIGR04085 or SPASM)) and (TIGR02111 or TIGR03966) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]))

#### 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 | redox-cofactor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000258.1 |  | 0.22 | Polyketide | prodigiosin | Serratia sp.
BGC0000259.1 |  | 0.22 | Polyketide | prodigiosin | Serratia marcescens
BGC0000260.1 |  | 0.20 | Polyketide | prodigiosin | Hahella chejuensis KCTC 2396
BGC0001441.1 |  | 0.18 | Other | belactosin A, belactosin C | Streptomyces sp.
BGC0000723.1 |  | 0.15 | Saccharide | β-D-galactosylvalidoxylamine-A | Streptomyces hygroscopicus subsp. limoneus
BGC0001586.1 |  | 0.15 | Saccharide | EPS273 | Pseudomonas stutzeri
BGC0000703.1 |  | 0.15 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0001440.1 |  | 0.15 | Other | cystargolide A, cystargolide B | Kitasatospora cystarginea
BGC0001917.1 |  | 0.14 | Polyketide | 5-alkyl-1,2,3,4-tetrahydroquinolines, streptoaminals | Streptomyces nigrescens
BGC0000895.1 |  | 0.14 | Other | citrulline | Lactobacillus plantarum subsp. plantarum

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000258.1 |  | 0.55 | Polyketide | prodigiosin | Serratia sp.
BGC0000259.1 |  | 0.55 | Polyketide | prodigiosin | Serratia marcescens
BGC0000260.1 |  | 0.52 | Polyketide | prodigiosin | Hahella chejuensis KCTC 2396
BGC0001441.1 |  | 0.49 | Other | belactosin A, belactosin C | Streptomyces sp.
BGC0000723.1 |  | 0.45 | Saccharide | β-D-galactosylvalidoxylamine-A | Streptomyces hygroscopicus subsp. limoneus
BGC0001586.1 |  | 0.45 | Saccharide | EPS273 | Pseudomonas stutzeri
BGC0000703.1 |  | 0.44 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0001440.1 |  | 0.44 | Other | cystargolide A, cystargolide B | Kitasatospora cystarginea
BGC0001917.1 |  | 0.44 | Polyketide | 5-alkyl-1,2,3,4-tetrahydroquinolines, streptoaminals | Streptomyces nigrescens
BGC0000895.1 |  | 0.44 | Other | citrulline | Lactobacillus plantarum subsp. plantarum

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