Select genomic region:
Overview
9.1
14.1

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

NZ_CTDX01000009 (original name was: NZ_CTDX01000009.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 9.1 | lanthipeptide-class-ii | 79,117 | 102,101 |

NZ_CTDX01000014 (original name was: NZ_CTDX01000014.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 14.1 | thiopeptide,LAP | 13,705 | 42,737 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 9.1 | lanthipeptide-class-ii | 79,117 | 102,101 |
Region 14.1 | thiopeptide,LAP | 13,705 | 42,737 |

No secondary metabolite regions were found in these records:
  NZ_CTDX01000001 (original name was: NZ_CTDX01000001.1)
  NZ_CTDX01000002 (original name was: NZ_CTDX01000002.1)
  NZ_CTDX01000003 (original name was: NZ_CTDX01000003.1)
  NZ_CTDX01000004 (original name was: NZ_CTDX01000004.1)
  NZ_CTDX01000005 (original name was: NZ_CTDX01000005.1)
  NZ_CTDX01000006 (original name was: NZ_CTDX01000006.1)
  NZ_CTDX01000007 (original name was: NZ_CTDX01000007.1)
  NZ_CTDX01000008 (original name was: NZ_CTDX01000008.1)
  NZ_CTDX01000010 (original name was: NZ_CTDX01000010.1)
  NZ_CTDX01000011 (original name was: NZ_CTDX01000011.1)
  NZ_CTDX01000012 (original name was: NZ_CTDX01000012.1)
  NZ_CTDX01000013 (original name was: NZ_CTDX01000013.1)
  NZ_CTDX01000015 (original name was: NZ_CTDX01000015.1)
  NZ_CTDX01000016 (original name was: NZ_CTDX01000016.1)

Compact view
c00009_NZ_CTDX.. - 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: 79,117 - 102,101 nt. (total: 22,985 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
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
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
--- | --- | --- | --- | --- | ---
BGC0000528.1 |  | 0.32 | RiPP | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001660.1 |  | 0.27 | RiPP | mathermycin | Marinactinospora thermotolerans
BGC0001364.1 |  | 0.26 | RiPP | cinnamycin B | Actinomadura atramentaria DSM 43919
BGC0000516.1 |  | 0.26 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0001210.1 |  | 0.25 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0001787.1 |  | 0.24 | RiPP | suicin 3908 | Streptococcus suis
BGC0000626.1 |  | 0.24 | RiPP | thuricin | Bacillus thuringiensis
BGC0000523.1 |  | 0.24 | RiPP | lactocin S | Lactobacillus sakei
BGC0000539.1 |  | 0.24 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000563.1 |  | 0.23 | RiPP | venezuelin | Streptomyces venezuelae ATCC 10712

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000528.1 |  | 0.65 | RiPP | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001660.1 |  | 0.60 | RiPP | mathermycin | Marinactinospora thermotolerans
BGC0001364.1 |  | 0.60 | RiPP | cinnamycin B | Actinomadura atramentaria DSM 43919
BGC0000516.1 |  | 0.59 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0001210.1 |  | 0.58 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0001787.1 |  | 0.58 | RiPP | suicin 3908 | Streptococcus suis
BGC0000626.1 |  | 0.58 | RiPP | thuricin | Bacillus thuringiensis
BGC0000523.1 |  | 0.57 | RiPP | lactocin S | Lactobacillus sakei
BGC0000539.1 |  | 0.57 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000563.1 |  | 0.57 | RiPP | venezuelin | Streptomyces venezuelae ATCC 10712

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 ctg9_64 - Putative Class II

ctg9_63 leader / core peptide
  MRGMGNKEEFEQLELLIIQLIAAEKTNKAIARELNYS - QRMVEYYINKIDhaKKLDAQDhbRAGIVYKACQLKLIK

#### 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.

ctg9_63 - Class II
  Cleavage pHMM score: -3.40
  RODEO score: 0
  Monoisotopic mass: 3976.2 Da
  Molecular weight: 3978.8 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3996.8 Da N = 1

c00014_NZ_CTDX.. - Region 1 - LAP,thiopeptide
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: 13,705 - 42,737 nt. (total: 29,033 nt) Show pHMM detection rules used
thiopeptide: ((YcaO or TIGR03882) and ((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or PF07366 or PF06968 or PF04055) or thiostrepton)
LAP: ((((goadsporin_like or PF00881 or TIGR03605) and (YcaO or TIGR03882 or TIGR03604)) or TIGR03603 or TIGR03602) and not cyanobactin_synth)

#### 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
Thiopeptides
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 | thiopeptide | LAP | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0001184.1 |  |  | 0.56 | Other | bacilysin | Bacillus velezensis FZB42
BGC0000888.1 |  |  | 0.55 | Other | bacilysin | Bacillus sp. CS93
BGC0000569.1 |  |  | 0.47 | RiPP | plantazolicin | Bacillus velezensis FZB42
BGC0002013.1 |  |  | 0.46 | RiPP | curacozole | Streptomyces curacoi
BGC0001171.1 |  |  | 0.46 | RiPP | listeriolysin S | Listeria monocytogenes serotype 4b str. F2365
BGC0000507.1 |  |  | 0.45 | RiPP | epicidin | Staphylococcus epidermidis
BGC0001170.1 |  |  | 0.42 | RiPP | clostridiolysin S | Clostridium sporogenes ATCC 15579
BGC0000564.1 |  |  | 0.42 | RiPP | clostridiolysin S | Clostridium botulinum A str. ATCC 3502
BGC0000543.1 |  |  | 0.42 | RiPP | pep5 | Staphylococcus epidermidis
BGC0000565.1 |  |  | 0.42 | RiPP | goadsporin | Streptomyces sp. TP-A0584

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001184.1 |  | 0.61 | Other | bacilysin | Bacillus velezensis FZB42
BGC0000888.1 |  | 0.61 | Other | bacilysin | Bacillus sp. CS93
BGC0000569.1 |  | 0.57 | RiPP | plantazolicin | Bacillus velezensis FZB42
BGC0002013.1 |  | 0.56 | RiPP | curacozole | Streptomyces curacoi
BGC0001171.1 |  | 0.56 | RiPP | listeriolysin S | Listeria monocytogenes serotype 4b str. F2365
BGC0000507.1 |  | 0.56 | RiPP | epicidin | Staphylococcus epidermidis
BGC0001170.1 |  | 0.54 | RiPP | clostridiolysin S | Clostridium sporogenes ATCC 15579
BGC0000543.1 |  | 0.54 | RiPP | pep5 | Staphylococcus epidermidis
BGC0000564.1 |  | 0.54 | RiPP | clostridiolysin S | Clostridium botulinum A str. ATCC 3502
BGC0000565.1 |  | 0.54 | RiPP | goadsporin | Streptomyces sp. TP-A0584

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.

Thiopeptide 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. Predicted tail sequences are also shown.
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
Thiopeptides
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists its possible molecular weights and the scores for cleavage site prediction and RODEO. If relevant, other features, such as macrocycle and amidation, will also be listed.
No core peptides found.