Select genomic region:
Overview
2.1
5.1
21.1

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

NZ_SLXA01000002 (original name was: NZ_SLXA01000002.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 2.1 | lanthipeptide-class-ii | 9,685 | 32,495 |

NZ_SLXA01000005 (original name was: NZ_SLXA01000005.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 5.1 | ranthipeptide | 1 | 14,904 |

NZ_SLXA01000021 (original name was: NZ_SLXA01000021.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 21.1 | lanthipeptide-class-ii | 1 | 20,275 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 2.1 | lanthipeptide-class-ii | 9,685 | 32,495 |
Region 5.1 | ranthipeptide | 1 | 14,904 |
Region 21.1 | lanthipeptide-class-ii | 1 | 20,275 |

No secondary metabolite regions were found in these records:
  NZ_SLXA01000001 (original name was: NZ_SLXA01000001.1)
  NZ_SLXA01000003 (original name was: NZ_SLXA01000003.1)
  NZ_SLXA01000004 (original name was: NZ_SLXA01000004.1)
  NZ_SLXA01000006 (original name was: NZ_SLXA01000006.1)
  NZ_SLXA01000007 (original name was: NZ_SLXA01000007.1)
  NZ_SLXA01000008 (original name was: NZ_SLXA01000008.1)
  NZ_SLXA01000009 (original name was: NZ_SLXA01000009.1)
  NZ_SLXA01000010 (original name was: NZ_SLXA01000010.1)
  NZ_SLXA01000011 (original name was: NZ_SLXA01000011.1)
  NZ_SLXA01000012 (original name was: NZ_SLXA01000012.1)
  NZ_SLXA01000013 (original name was: NZ_SLXA01000013.1)
  NZ_SLXA01000014 (original name was: NZ_SLXA01000014.1)
  NZ_SLXA01000015 (original name was: NZ_SLXA01000015.1)
  NZ_SLXA01000016 (original name was: NZ_SLXA01000016.1)
  NZ_SLXA01000017 (original name was: NZ_SLXA01000017.1)
  NZ_SLXA01000018 (original name was: NZ_SLXA01000018.1)
  NZ_SLXA01000019 (original name was: NZ_SLXA01000019.1)
  NZ_SLXA01000020 (original name was: NZ_SLXA01000020.1)
  NZ_SLXA01000022 (original name was: NZ_SLXA01000022.1)
  NZ_SLXA01000023 (original name was: NZ_SLXA01000023.1)
  NZ_SLXA01000024 (original name was: NZ_SLXA01000024.1)
  NZ_SLXA01000025 (original name was: NZ_SLXA01000025.1)
  NZ_SLXA01000026 (original name was: NZ_SLXA01000026.1)
  NZ_SLXA01000027 (original name was: NZ_SLXA01000027.1)
  NZ_SLXA01000028 (original name was: NZ_SLXA01000028.1)
  NZ_SLXA01000029 (original name was: NZ_SLXA01000029.1)
  NZ_SLXA01000030 (original name was: NZ_SLXA01000030.1)
  NZ_SLXA01000031 (original name was: NZ_SLXA01000031.1)
  NZ_SLXA01000032 (original name was: NZ_SLXA01000032.1)
  NZ_SLXA01000033 (original name was: NZ_SLXA01000033.1)
  NZ_SLXA01000034 (original name was: NZ_SLXA01000034.1)
  NZ_SLXA01000035 (original name was: NZ_SLXA01000035.1)

Compact view
c00002_NZ_SLXA.. - 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: 9,685 - 32,495 nt. (total: 22,811 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
--- | --- | --- | --- | --- | ---
BGC0000525.1 |  | 0.25 | RiPP | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000528.1 |  | 0.23 | RiPP | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000504.1 |  | 0.23 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000626.1 |  | 0.20 | RiPP | thuricin | Bacillus thuringiensis
BGC0000539.1 |  | 0.20 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000516.1 |  | 0.19 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000521.1 |  | 0.19 | RiPP | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0001660.1 |  | 0.19 | RiPP | mathermycin | Marinactinospora thermotolerans
BGC0001407.1 |  | 0.18 | RiPP | bicereucin | Bacillus cereus SJ1
BGC0001787.1 |  | 0.16 | RiPP | suicin 3908 | Streptococcus suis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000525.1 |  | 0.58 | RiPP | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0000528.1 |  | 0.57 | RiPP | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0000504.1 |  | 0.56 | RiPP | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000626.1 |  | 0.53 | RiPP | thuricin | Bacillus thuringiensis
BGC0000539.1 |  | 0.52 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0000516.1 |  | 0.51 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000521.1 |  | 0.51 | RiPP | lacticin 481 | Lactococcus lactis subsp. lactis
BGC0001660.1 |  | 0.51 | RiPP | mathermycin | Marinactinospora thermotolerans
BGC0001407.1 |  | 0.50 | RiPP | bicereucin | Bacillus cereus SJ1
BGC0001787.1 |  | 0.47 | RiPP | suicin 3908 | Streptococcus suis

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 ctg2_31 - Putative Class II

ctg2_32 leader / core peptide
  VIEKSFLYA - GNLEEEIREIRGLVEKDhaDGLEQKDDhaFDhaVEC DhaPILDhbIYC C
allorf_011598_011735 leader / core peptide
  VIRFPAFLRSFFAG - EPACRDhaLIKKFRFYDhaAFLKKPCIDhbPRKGKIR
allorf_029229_029357 leader / core peptide
  LMGWGIDTGKQARYIGEMKITGG - LKRYC DhaWPDhbGCFLIQYDhaLL
allorf_030024_030203 leader / core peptide
  VPGKSDKLISSQSRYG - LFGDhb DhaPFDEGDhaAYEDhaEPLLLYYIFEGFDhaNDhbFYDhbNDhaEIFICRDhaL

#### 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.

ctg2_32 - Class II
  Cleavage pHMM score: -5.80
  RODEO score: 0
  Monoisotopic mass: 4311.1 Da
  Molecular weight: 4313.8 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4331.8 Da N = 1
    4349.9 Da N = 2
allorf_011598_011735 - Class II
  Cleavage pHMM score: -4.70
  RODEO score: 0
  Monoisotopic mass: 3627.1 Da
  Molecular weight: 3629.4 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3647.4 Da N = 1
allorf_029229_029357 - Class II
  Cleavage pHMM score: -4.30
  RODEO score: 0
  Monoisotopic mass: 2236.2 Da
  Molecular weight: 2237.7 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2255.7 Da N = 1
allorf_030024_030203 - Class II
  Cleavage pHMM score: -6.80
  RODEO score: 0
  Monoisotopic mass: 4804.3 Da
  Molecular weight: 4807.3 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4825.3 Da N = 1
    4843.3 Da N = 2
    4861.3 Da N = 3
    4879.3 Da N = 4
    4897.4 Da N = 5
    4915.4 Da N = 6
    4933.4 Da N = 7
    4951.4 Da N = 8

c00005_NZ_SLXA.. - Region 1 - 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 - 14,904 nt. (total: 14,904 nt) Show pHMM detection rules used
Region on contig edge.
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
--- | --- | --- | --- | --- | ---
BGC0001891.1 |  | 0.41 | Other | closthioamide | Ruminiclostridium cellulolyticum H10
BGC0001387.1 |  | 0.17 | Other | nucleocidin | Streptomyces calvus
BGC0000599.1 |  | 0.15 | RiPP | thuricin CD α, thuricin CD β | Bacillus thuringiensis
BGC0000466.1 |  | 0.14 | NRP | yatakemycin | Streptomyces sp. TP-A2060
BGC0001607.1 |  | 0.13 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0001540.1 |  | 0.13 | Other | CC-1065 | Streptomyces zelensis
BGC0000807.1 |  | 0.10 | Saccharide | phosphonoglycans | Stackebrandtia nassauensis DSM 44728
BGC0001591.1 |  | 0.07 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.07 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001089.1 |  | 0.04 | Polyketide, NRP | bacillaene | Bacillus velezensis FZB42

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001891.1 |  | 0.73 | Other | closthioamide | Ruminiclostridium cellulolyticum H10
BGC0001387.1 |  | 0.48 | Other | nucleocidin | Streptomyces calvus
BGC0000599.1 |  | 0.45 | RiPP | thuricin CD α, thuricin CD β | Bacillus thuringiensis
BGC0000466.1 |  | 0.44 | NRP | yatakemycin | Streptomyces sp. TP-A2060
BGC0001607.1 |  | 0.42 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0001540.1 |  | 0.42 | Other | CC-1065 | Streptomyces zelensis
BGC0000807.1 |  | 0.35 | Saccharide | phosphonoglycans | Stackebrandtia nassauensis DSM 44728
BGC0001591.1 |  | 0.28 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.28 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001089.1 |  | 0.20 | Polyketide, NRP | bacillaene | Bacillus velezensis FZB42

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
c00021_NZ_SLXA.. - 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: 1 - 20,275 nt. (total: 20,275 nt) Show pHMM detection rules used
Region on contig edge.
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
--- | --- | --- | --- | --- | ---
BGC0000516.1 |  | 0.19 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000554.1 |  | 0.18 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001210.1 |  | 0.15 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000517.1 |  | 0.13 | RiPP | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000761.1 |  | 0.13 | Saccharide | exopolysaccharide | Methylobacillus sp. 12S
BGC0001281.1 |  | 0.04 | Polyketide | ustilagic acid | Ustilago maydis 521

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000516.1 |  | 0.51 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0000554.1 |  | 0.49 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001210.1 |  | 0.46 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000517.1 |  | 0.41 | RiPP | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000761.1 |  | 0.41 | Saccharide | exopolysaccharide | Methylobacillus sp. 12S
BGC0001281.1 |  | 0.19 | Polyketide | ustilagic acid | Ustilago maydis 521

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 ctg21_10 - Putative Class II

allorf_10295_10447 leader / core peptide
  MENRKNENSMNLAGDIRKEMDEIQKM - QADhb DhbPLILDhaMVDhbNDhb CADLDhb DhbVIC 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.

allorf_10295_10447 - Class II
  Cleavage pHMM score: -3.30
  RODEO score: 0
  Monoisotopic mass: 2385.2 Da
  Molecular weight: 2386.8 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2404.9 Da N = 1
    2422.9 Da N = 2
    2440.9 Da N = 3
    2458.9 Da N = 4