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Overview
1.1
1.2
1.3
1.4
1.5
3.1
3.2

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

NZ_CP013239.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | cyclic-lactone-autoinducer | 1,096,926 | 1,115,034 |
Region 1.2 | cyclic-lactone-autoinducer | 1,394,397 | 1,412,867 |
Region 1.3 | lassopeptide | 2,873,266 | 2,899,382 |
Region 1.4 | cyclic-lactone-autoinducer | 2,940,612 | 2,961,148 |
Region 1.5 | ranthipeptide | 3,278,129 | 3,299,490 |

NZ_CP013238.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 3.1 | RRE-containing | 213,605 | 233,955 |
Region 3.2 | NRPS,T1PKS,NRPS-like | 358,308 | 419,728 | equibactin | NRP | 28%

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | cyclic-lactone-autoinducer | 1,096,926 | 1,115,034 |
Region 1.2 | cyclic-lactone-autoinducer | 1,394,397 | 1,412,867 |
Region 1.3 | lassopeptide | 2,873,266 | 2,899,382 |
Region 1.4 | cyclic-lactone-autoinducer | 2,940,612 | 2,961,148 |
Region 1.5 | ranthipeptide | 3,278,129 | 3,299,490 |
Region 3.1 | RRE-containing | 213,605 | 233,955 |
Region 3.2 | NRPS,T1PKS,NRPS-like | 358,308 | 419,728 | equibactin | NRP | 28%

No secondary metabolite regions were found in these records:
  NZ_CP013240.1

Compact view
NZ_CP013239.1 - Region 1 - cyclic-lactone-autoinducer
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: 1,096,926 - 1,115,034 nt. (total: 18,109 nt) Show pHMM detection rules used
cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

#### 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 | cyclic-lactone-autoinducer | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000488.1 |  | 0.23 | RiPP | circularin A | Clostridium beijerinckii
BGC0000502.1 |  | 0.20 | RiPP | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0000500.1 |  | 0.19 | RiPP | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0000504.1 |  | 0.19 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000560.1 |  | 0.18 | RiPP | subtilomycin | Bacillus subtilis
BGC0000543.1 |  | 0.18 | RiPP | pep5 | Staphylococcus epidermidis
BGC0001526.1 |  | 0.17 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001579.1 |  | 0.16 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0001407.1 |  | 0.16 | RiPP | bicereucin | Bacillus cereus SJ1
BGC0000626.1 |  | 0.16 | RiPP | thuricin | Bacillus thuringiensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000488.1 |  | 0.56 | RiPP | circularin A | Clostridium beijerinckii
BGC0000502.1 |  | 0.52 | RiPP | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0000500.1 |  | 0.52 | RiPP | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0000504.1 |  | 0.52 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000560.1 |  | 0.50 | RiPP | subtilomycin | Bacillus subtilis
BGC0000543.1 |  | 0.50 | RiPP | pep5 | Staphylococcus epidermidis
BGC0001526.1 |  | 0.48 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001579.1 |  | 0.47 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0001407.1 |  | 0.47 | RiPP | bicereucin | Bacillus cereus SJ1
BGC0000626.1 |  | 0.47 | RiPP | thuricin | Bacillus thuringiensis

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_CP013239.1 - Region 2 - cyclic-lactone-autoinducer
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: 1,394,397 - 1,412,867 nt. (total: 18,471 nt) Show pHMM detection rules used
cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

#### 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 | cyclic-lactone-autoinducer | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001914.1 |  | 0.16 | Other | benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K | Streptomyces sp. RI18
BGC0001529.1 |  | 0.16 | Alkaloid | bezastatin derivates | Streptomyces sp. RI18
BGC0002031.1 |  | 0.15 | Alkaloid | kitasetaline | Kitasatospora setae KM-6054
BGC0001586.1 |  | 0.15 | Saccharide | EPS273 | Pseudomonas stutzeri
BGC0000922.1 |  | 0.13 | Other | pseudomonas quinolone signal (PQS) | Pseudomonas aeruginosa PAO1
BGC0000110.1 |  | 0.09 | Polyketide | spectinabilin, orinocin, SNF4435C, SNF4435D | Streptomyces orinoci
BGC0000024.1 |  | 0.09 | Polyketide | aureothin | Streptomyces thioluteus
BGC0001437.1 |  | 0.08 | NRP | obafluorin | Pseudomonas fluorescens
BGC0001710.1 |  | 0.08 | NRP | obafluorin | Pseudomonas fluorescens
BGC0001686.1 |  | 0.08 | NRP | N-octanoyl-Met-Phe-H | Clostridium sp. CAG:567

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001914.1 |  | 0.47 | Other | benzastatin J, 7-hydroxyl benzastatin B, 7-hydroxyl O-demethylbenzastatin A, JBIR-67, 7-hydroxyl benzastatin F, 7-hydroxyl O-demethylbenzastatin D, O-demethylvirantmycin, 7-hydroxyl benzastatin D, virantmycin, benzastatin K, methylbenzastatin K | Streptomyces sp. RI18
BGC0001529.1 |  | 0.47 | Alkaloid | bezastatin derivates | Streptomyces sp. RI18
BGC0002031.1 |  | 0.45 | Alkaloid | kitasetaline | Kitasatospora setae KM-6054
BGC0001586.1 |  | 0.45 | Saccharide | EPS273 | Pseudomonas stutzeri
BGC0000922.1 |  | 0.42 | Other | pseudomonas quinolone signal (PQS) | Pseudomonas aeruginosa PAO1
BGC0000110.1 |  | 0.33 | Polyketide | spectinabilin, orinocin, SNF4435C, SNF4435D | Streptomyces orinoci
BGC0000024.1 |  | 0.33 | Polyketide | aureothin | Streptomyces thioluteus
BGC0001437.1 |  | 0.31 | NRP | obafluorin | Pseudomonas fluorescens
BGC0001710.1 |  | 0.31 | NRP | obafluorin | Pseudomonas fluorescens
BGC0001686.1 |  | 0.31 | NRP | N-octanoyl-Met-Phe-H | Clostridium sp. CAG:567

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_CP013239.1 - Region 3 - lassopeptide
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: 2,873,266 - 2,899,382 nt. (total: 26,117 nt) Show pHMM detection rules used
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

#### 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
Lasso peptides
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 | lassopeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000571.1 |  | 0.25 | RiPP | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001494.1 |  | 0.23 | RiPP | acinetodin | Acinetobacter gyllenbergii CIP 110306
BGC0000796.1 |  | 0.21 | Saccharide | S-layer glycan | Paenibacillus alvei
BGC0000578.1 |  | 0.20 | RiPP | SRO15-2005 | Streptomyces filamentosus NRRL 15998
BGC0000504.1 |  | 0.19 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0001407.1 |  | 0.19 | RiPP | bicereucin | Bacillus cereus SJ1
BGC0000543.1 |  | 0.18 | RiPP | pep5 | Staphylococcus epidermidis
BGC0001356.1 |  | 0.18 | RiPP | paeninodin | Paenibacillus dendritiformis C454
BGC0000509.1 |  | 0.17 | RiPP | epilancin 15x | Staphylococcus epidermidis
BGC0001229.1 |  | 0.17 | RiPP | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000571.1 |  | 0.59 | RiPP | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001494.1 |  | 0.57 | RiPP | acinetodin | Acinetobacter gyllenbergii CIP 110306
BGC0000796.1 |  | 0.54 | Saccharide | S-layer glycan | Paenibacillus alvei
BGC0000578.1 |  | 0.52 | RiPP | SRO15-2005 | Streptomyces filamentosus NRRL 15998
BGC0000504.1 |  | 0.51 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0001407.1 |  | 0.51 | RiPP | bicereucin | Bacillus cereus SJ1
BGC0000543.1 |  | 0.49 | RiPP | pep5 | Staphylococcus epidermidis
BGC0001356.1 |  | 0.49 | RiPP | paeninodin | Paenibacillus dendritiformis C454
BGC0000509.1 |  | 0.49 | RiPP | epilancin 15x | Staphylococcus epidermidis
BGC0001229.1 |  | 0.48 | RiPP | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1

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.

Lasso peptide predictions
Lists the possible core peptides for each biosynthetic enzyme, including the predicted class. Each core peptide shows the leader and core peptide sequences, separated by a dash.
Lassopeptides - No core peptides 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
Lasso peptides
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of disulfide bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.
No core peptides found.
NZ_CP013239.1 - Region 4 - cyclic-lactone-autoinducer
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: 2,940,612 - 2,961,148 nt. (total: 20,537 nt) Show pHMM detection rules used
cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

#### 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:

No matches found.

No matches found.

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_CP013239.1 - Region 5 - 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: 3,278,129 - 3,299,490 nt. (total: 21,362 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
--- | --- | --- | --- | --- | ---
BGC0000548.1 |  | 0.17 | RiPP | salivaricin A | Streptococcus salivarius
BGC0000554.1 |  | 0.16 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000502.1 |  | 0.16 | RiPP | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0000516.1 |  | 0.16 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000561.1 |  | 0.16 | RiPP | thermophilin 1277 | Streptococcus thermophilus
BGC0000498.1 |  | 0.16 | RiPP | bovicin HJ50 | Streptococcus equinus
BGC0000626.1 |  | 0.16 | RiPP | thuricin | Bacillus thuringiensis
BGC0000504.1 |  | 0.15 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0001210.1 |  | 0.15 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000527.1 |  | 0.15 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000548.1 |  | 0.48 | RiPP | salivaricin A | Streptococcus salivarius
BGC0000554.1 |  | 0.47 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000502.1 |  | 0.47 | RiPP | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0000516.1 |  | 0.46 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000561.1 |  | 0.46 | RiPP | thermophilin 1277 | Streptococcus thermophilus
BGC0000498.1 |  | 0.46 | RiPP | bovicin HJ50 | Streptococcus equinus
BGC0000626.1 |  | 0.46 | RiPP | thuricin | Bacillus thuringiensis
BGC0000504.1 |  | 0.46 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0001210.1 |  | 0.46 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000527.1 |  | 0.46 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728

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_CP013238.1 - Region 1 - RRE-containing
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: 213,605 - 233,955 nt. (total: 20,351 nt) Show pHMM detection rules used
RRE-containing: 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 | RRE-containing | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000554.1 |  | 0.17 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000904.1 |  | 0.16 | Other | FR-900098 | Streptomyces rubellomurinus
BGC0000527.1 |  | 0.16 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000487.1 |  | 0.16 | RiPP | carnocyclin | Carnobacterium maltaromaticum
BGC0000703.1 |  | 0.16 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0001525.1 |  | 0.16 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001639.1 |  | 0.16 | RiPP | klebsidin | Klebsiella pneumoniae
BGC0001526.1 |  | 0.16 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0000539.1 |  | 0.16 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000557.1 |  | 0.16 | RiPP | streptococcin A-FF22 | Streptococcus pyogenes

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000554.1 |  | 0.47 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000904.1 |  | 0.47 | Other | FR-900098 | Streptomyces rubellomurinus
BGC0000527.1 |  | 0.47 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000487.1 |  | 0.47 | RiPP | carnocyclin | Carnobacterium maltaromaticum
BGC0000703.1 |  | 0.47 | Saccharide | kanamycin | Streptomyces kanamyceticus
BGC0001525.1 |  | 0.47 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0001639.1 |  | 0.47 | RiPP | klebsidin | Klebsiella pneumoniae
BGC0001526.1 |  | 0.47 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0000539.1 |  | 0.47 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000557.1 |  | 0.47 | RiPP | streptococcin A-FF22 | Streptococcus pyogenes

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_CP013238.1 - Region 2 - NRPS,NRPS-like,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: 358,308 - 419,728 nt. (total: 61,421 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX))
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
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
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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 | T1PKS | NRPS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | ---
BGC0000427.1 |  |  |  | 0.98 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001527.1 |  |  |  | 0.95 | Other | basidioferrin | Gelatoporia subvermispora
BGC0000375.1 |  |  |  | 0.94 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000900.1 |  |  |  | 0.93 | Other | ferrichrome | Aspergillus oryzae
BGC0000348.1 |  |  |  | 0.93 | NRP | ergovaline | Epichloe festucae var. lolii
BGC0000979.1 |  |  |  | 0.89 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 10E9
BGC0000980.1 |  |  |  | 0.89 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 22D11
BGC0002002.1 |  |  |  | 0.85 | NRP | 1,6-phenazinedimethanol, fontizine A | Serratia fonticola
BGC0001161.1 |  |  |  | 0.84 | Polyketide | 1-heptadecene | Moorea bouillonii PNG
BGC0001162.1 |  |  |  | 0.84 | Polyketide | 1-heptadecene | Moorea producens JHB

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.66 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0001527.1 |  | 0.65 | Other | basidioferrin | Gelatoporia subvermispora
BGC0000375.1 |  | 0.65 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000900.1 |  | 0.65 | Other | ferrichrome | Aspergillus oryzae
BGC0000348.1 |  | 0.64 | NRP | ergovaline | Epichloe festucae var. lolii
BGC0000979.1 |  | 0.63 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 10E9
BGC0000980.1 |  | 0.63 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 22D11
BGC0002002.1 |  | 0.63 | NRP | 1,6-phenazinedimethanol, fontizine A | Serratia fonticola
BGC0001161.1 |  | 0.62 | Polyketide | 1-heptadecene | Moorea bouillonii PNG
BGC0001162.1 |  | 0.62 | Polyketide | 1-heptadecene | Moorea producens JHB

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 358307 - 419728:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (cys) + (cys) + (X) + (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 358307 - 412825:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (cys) + (cys) + (X) + (mal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 4, location 376209 - 419728:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (cys) + (cys) + (X) + (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).

ctg3_393: mal - cys
  Search NORINE for peptide: strict or relaxed
  PKS_AT (562..844): mal
  ATSignature: Malonyl-CoA
  Top 3 matches:
    Malonyl-CoA: 83.3%
    inactive: 79.2%
  minowa: Malonyl-CoA
  Prediction, score:
    Malonyl-CoA: 146.9
    inactive: 131.7
    Methoxymalonyl-CoA: 57.3
    Methylmalonyl-CoA: 50.1
    Propionyl-CoA: 32.6
    Isobutyryl-CoA: 27.7
    Acetyl-CoA: 23.6
    Benzoyl-CoA: 23.5
    CHC-CoA: 15.0
    Ethylmalonyl-CoA: 12.9
    2-Methylbutyryl-CoA: 12.1
    trans-1,2-CPDA: 0.0
    fatty_acid: 0.0
    3-Methylbutyryl-CoA: 0.0
  AMP-binding (1508..1895): cys
  NRPSPredictor2: cys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      cys
    Small clusters prediction:
      cys
    Single AA prediction:
      cys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLYNiSMIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
ctg3_394: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (21..480): X
  NRPSPredictor2: hydrophobic-aliphatic
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      N/A
    Small clusters prediction:
      N/A
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLyaLAaLiK
    Nearest Stachelhaus code:
      iva
    Stachelhaus code match:
      60% (weak)
ctg3_395: cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (537..932): cys
  NRPSPredictor2: cys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      cys
    Small clusters prediction:
      cys
    Single AA prediction:
      cys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLyNMSLIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
ctg3_398: cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (222..620): cys
  NRPSPredictor2: cys
  SVM prediction details:
    Predicted physicochemical class:
      hydrophobic-aliphatic
    Large clusters prediction:
      cys
    Small clusters prediction:
      cys
    Single AA prediction:
      cys
  Stachelhaus prediction details:
    Stachelhaus sequence:
      DLYNLSLIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      100% (strong)