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Overview
1.1
1.2

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

NZ_CP022413.2

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | lanthipeptide-class-ii | 280,782 | 303,892 |
Region 2 | ranthipeptide | 1,038,853 | 1,060,565 |

NZ_CP022413.2 - Region 1 - lanthipeptide-class-ii
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: 280,782 - 303,892 nt. (total: 23,111 nt) Show pHMM detection rules used
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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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
Lanthipeptides
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 | lanthipeptide-class-ii | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000519.1 |  | 0.20 | RiPP | labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3 | Actinomadura namibiensis
BGC0000626.1 |  | 0.19 | RiPP | thuricin | Bacillus thuringiensis
BGC0000539.1 |  | 0.19 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000500.1 |  | 0.18 | RiPP | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0000525.1 |  | 0.18 | RiPP | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000504.1 |  | 0.18 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000521.1 |  | 0.17 | RiPP | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0000516.1 |  | 0.17 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000502.1 |  | 0.16 | RiPP | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0000561.1 |  | 0.16 | RiPP | thermophilin 1277 | Streptococcus thermophilus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000519.1 |  | 0.53 | RiPP | labyrinthopeptin A2, labyrinthopeptin A1, labyrinthopeptin A3 | Actinomadura namibiensis
BGC0000626.1 |  | 0.51 | RiPP | thuricin | Bacillus thuringiensis
BGC0000539.1 |  | 0.51 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000500.1 |  | 0.50 | RiPP | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0000525.1 |  | 0.49 | RiPP | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000504.1 |  | 0.49 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000521.1 |  | 0.49 | RiPP | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0000516.1 |  | 0.48 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000502.1 |  | 0.46 | RiPP | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus
BGC0000561.1 |  | 0.46 | RiPP | thermophilin 1277 | Streptococcus thermophilus

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.

Lanthipeptide 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.

#### Lanthipeptide(s) for ctg1_266 - Putative Class II

ctg1_265 leader / core peptide
  MRKFDRTNMKYNNPAGNLLTELEAADLTSNKVDSLGS - DhaGVVC DhbIDhaVECGDhaIFDhbLAC C

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
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
Lanthipeptides
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.

ctg1_265 - Class II
  Cleavage pHMM score: -3.90
  RODEO score: 0
  Monoisotopic mass: 1900.9 Da
  Molecular weight: 1902.3 Da
  Number of bridges: 4
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1920.3 Da N = 1

NZ_CP022413.2 - Region 2 - 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: 1,038,853 - 1,060,565 nt. (total: 21,713 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
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.17 | Other | nucleocidin | Streptomyces calvus
BGC0000613.1 |  | 0.10 | RiPP | thiomuracin A | Nonomuraea sp. Bp3714-39
BGC0001860.1 |  | 0.10 | RiPP | thiomuracin | Thermobispora bispora DSM 43833
BGC0001591.1 |  | 0.09 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.09 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001155.1 |  | 0.09 | RiPP | GE2270 | Planobispora rosea
BGC0000604.1 |  | 0.08 | RiPP | GE2270A | Nonomuraea sp. WU8817
BGC0001002.1 |  | 0.08 | NRP, Polyketide | jawsamycin | Streptomyces roseoverticillatus
BGC0001048.1 |  | 0.04 | NRP, Polyketide, Saccharide | tallysomycin A | Streptoalloteichus hindustanus
BGC0001058.1 |  | 0.04 | NRP, Polyketide, Saccharide | zorbamycin | Streptomyces flavoviridis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.48 | Other | nucleocidin | Streptomyces calvus
BGC0000613.1 |  | 0.36 | RiPP | thiomuracin A | Nonomuraea sp. Bp3714-39
BGC0001860.1 |  | 0.36 | RiPP | thiomuracin | Thermobispora bispora DSM 43833
BGC0001591.1 |  | 0.32 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.32 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001155.1 |  | 0.32 | RiPP | GE2270 | Planobispora rosea
BGC0000604.1 |  | 0.31 | RiPP | GE2270A | Nonomuraea sp. WU8817
BGC0001002.1 |  | 0.31 | NRP, Polyketide | jawsamycin | Streptomyces roseoverticillatus
BGC0001048.1 |  | 0.19 | NRP, Polyketide, Saccharide | tallysomycin A | Streptoalloteichus hindustanus
BGC0001058.1 |  | 0.18 | NRP, Polyketide, Saccharide | zorbamycin | Streptomyces flavoviridis

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