Select genomic region:
Overview
4.1
12.1
12.2
19.1
19.2
20.1
22.1

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

NZ_QVMD01000012 (original name was: NZ_QVMD01000012.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 4.1 | cyclic-lactone-autoinducer | 35,188 | 48,078 |

NZ_QVMD01000002 (original name was: NZ_QVMD01000002.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 12.1 | lanthipeptide-class-ii | 253,028 | 276,057 |
Region 12.2 | ranthipeptide | 284,550 | 305,995 |

NZ_QVMD01000004 (original name was: NZ_QVMD01000004.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 19.1 | NRPS-like,cyclic-lactone-autoinducer | 245,354 | 287,075 |
Region 19.2 | ranthipeptide | 340,077 | 361,728 |

NZ_QVMD01000005 (original name was: NZ_QVMD01000005.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 20.1 | NRPS | 67,407 | 120,709 |

NZ_QVMD01000007 (original name was: NZ_QVMD01000007.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 22.1 | nucleoside | 129,999 | 151,003 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 4.1 | cyclic-lactone-autoinducer | 35,188 | 48,078 |
Region 12.1 | lanthipeptide-class-ii | 253,028 | 276,057 |
Region 12.2 | ranthipeptide | 284,550 | 305,995 |
Region 19.1 | NRPS-like,cyclic-lactone-autoinducer | 245,354 | 287,075 |
Region 19.2 | ranthipeptide | 340,077 | 361,728 |
Region 20.1 | NRPS | 67,407 | 120,709 |
Region 22.1 | nucleoside | 129,999 | 151,003 |

No secondary metabolite regions were found in these records:
  NZ_QVMD01000001 (original name was: NZ_QVMD01000001.1)
  NZ_QVMD01000010 (original name was: NZ_QVMD01000010.1)
  NZ_QVMD01000011 (original name was: NZ_QVMD01000011.1)
  NZ_QVMD01000013 (original name was: NZ_QVMD01000013.1)
  NZ_QVMD01000014 (original name was: NZ_QVMD01000014.1)
  NZ_QVMD01000015 (original name was: NZ_QVMD01000015.1)
  NZ_QVMD01000016 (original name was: NZ_QVMD01000016.1)
  NZ_QVMD01000017 (original name was: NZ_QVMD01000017.1)
  NZ_QVMD01000018 (original name was: NZ_QVMD01000018.1)
  NZ_QVMD01000019 (original name was: NZ_QVMD01000019.1)
  NZ_QVMD01000020 (original name was: NZ_QVMD01000020.1)
  NZ_QVMD01000021 (original name was: NZ_QVMD01000021.1)
  NZ_QVMD01000022 (original name was: NZ_QVMD01000022.1)
  NZ_QVMD01000023 (original name was: NZ_QVMD01000023.1)
  NZ_QVMD01000024 (original name was: NZ_QVMD01000024.1)
  NZ_QVMD01000003 (original name was: NZ_QVMD01000003.1)
  NZ_QVMD01000006 (original name was: NZ_QVMD01000006.1)
  NZ_QVMD01000008 (original name was: NZ_QVMD01000008.1)
  NZ_QVMD01000009 (original name was: NZ_QVMD01000009.1)

Compact view
c00004_NZ_QVMD.. - 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: 35,188 - 48,078 nt. (total: 12,891 nt) Show pHMM detection rules used
Region on contig edge.
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
--- | --- | --- | --- | --- | ---
BGC0002009.1 |  | 0.16 | Polyketide | kanglemycin A, kanglemycin V1, kanglemycin V2 | Amycolatopsis vancoresmycina
BGC0000772.1 |  | 0.16 | Saccharide | lipopolysaccharide | Brucella melitensis
BGC0001610.1 |  | 0.16 | Other | gougerotin | Streptomyces ahygroscopicus subsp. wuzhouensis
BGC0000898.1 |  | 0.15 | Saccharide | desosamine | Streptomyces venezuelae
BGC0000760.1 |  | 0.15 | Saccharide | emulsan | Acinetobacter venetianus RAG-1 = CIP 110063
BGC0000899.1 |  | 0.15 | Other | desosamine | Streptomyces narbonensis
BGC0000775.1 |  | 0.15 | Saccharide | lipopolysaccharide | Legionella pneumophila
BGC0000790.1 |  | 0.15 | Saccharide | O-antigen | Escherichia coli
BGC0001747.1 |  | 0.15 | Other | pseudaminic acid | Tannerella forsythia
BGC0001774.1 |  | 0.15 | Other | spicamycin | Streptomyces fimbriatus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002009.1 |  | 0.47 | Polyketide | kanglemycin A, kanglemycin V1, kanglemycin V2 | Amycolatopsis vancoresmycina
BGC0000772.1 |  | 0.46 | Saccharide | lipopolysaccharide | Brucella melitensis
BGC0001610.1 |  | 0.46 | Other | gougerotin | Streptomyces ahygroscopicus subsp. wuzhouensis
BGC0000898.1 |  | 0.46 | Saccharide | desosamine | Streptomyces venezuelae
BGC0000760.1 |  | 0.46 | Saccharide | emulsan | Acinetobacter venetianus RAG-1 = CIP 110063
BGC0000899.1 |  | 0.45 | Other | desosamine | Streptomyces narbonensis
BGC0000775.1 |  | 0.45 | Saccharide | lipopolysaccharide | Legionella pneumophila
BGC0000790.1 |  | 0.45 | Saccharide | O-antigen | Escherichia coli
BGC0001747.1 |  | 0.45 | Other | pseudaminic acid | Tannerella forsythia
BGC0001774.1 |  | 0.44 | Other | spicamycin | Streptomyces fimbriatus

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
c00012_NZ_QVMD.. - 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: 253,028 - 276,057 nt. (total: 23,030 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
--- | --- | --- | --- | --- | ---
BGC0000554.1 |  | 0.23 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
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
BGC0000548.1 |  | 0.16 | RiPP | salivaricin A | Streptococcus salivarius
BGC0000496.1 |  | 0.16 | RiPP | AmfS | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000561.1 |  | 0.16 | RiPP | thermophilin 1277 | Streptococcus thermophilus
BGC0000498.1 |  | 0.16 | RiPP | bovicin HJ50 | Streptococcus equinus
BGC0001787.1 |  | 0.16 | RiPP | suicin 3908 | Streptococcus suis
BGC0000527.1 |  | 0.15 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000554.1 |  | 0.56 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
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
BGC0000548.1 |  | 0.47 | RiPP | salivaricin A | Streptococcus salivarius
BGC0000496.1 |  | 0.47 | RiPP | AmfS | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000561.1 |  | 0.46 | RiPP | thermophilin 1277 | Streptococcus thermophilus
BGC0000498.1 |  | 0.46 | RiPP | bovicin HJ50 | Streptococcus equinus
BGC0001787.1 |  | 0.46 | RiPP | suicin 3908 | Streptococcus suis
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.

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 ctg12_242 - Putative Class II

ctg12_243 leader / core peptide
  MKENKNLEFA - GDLMAEVQEAQKVC CPDKGIERGRDhb Dhb Dhb DhaDCALFLDhbIFC 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.

ctg12_243 - Class II
  Cleavage pHMM score: -2.20
  RODEO score: 0
  Monoisotopic mass: 4161.0 Da
  Molecular weight: 4163.8 Da
  Number of bridges: 5

c00012_NZ_QVMD.. - 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: 284,550 - 305,995 nt. (total: 21,446 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
--- | --- | --- | --- | --- | ---
BGC0000600.1 |  | 0.19 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001551.1 |  | 0.16 | RiPP | citrulassin E | Streptomyces glaucescens
BGC0000551.1 |  | 0.16 | RiPP | SapB | Streptomyces coelicolor A3(2)
BGC0000616.1 |  | 0.16 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000554.1 |  | 0.15 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000489.1 |  | 0.15 | RiPP | enterocin AS-48 | Enterococcus faecalis
BGC0000516.1 |  | 0.15 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0001484.1 |  | 0.15 | Other | 2'-chloropentostatin, 2'-amino-2'-deoxyadenosine | Actinomadura sp. ATCC 39365
BGC0001374.1 |  | 0.15 | Other | thienodolin | Streptomyces albogriseolus
BGC0000294.1 |  | 0.15 | NRP | acinetobactin | Acinetobacter baumannii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000600.1 |  | 0.51 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001551.1 |  | 0.47 | RiPP | citrulassin E | Streptomyces glaucescens
BGC0000551.1 |  | 0.47 | RiPP | SapB | Streptomyces coelicolor A3(2)
BGC0000616.1 |  | 0.46 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000554.1 |  | 0.46 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000489.1 |  | 0.46 | RiPP | enterocin AS-48 | Enterococcus faecalis
BGC0000516.1 |  | 0.45 | RiPP | geobacillin II | Geobacillus thermodenitrificans
BGC0001484.1 |  | 0.45 | Other | 2'-chloropentostatin, 2'-amino-2'-deoxyadenosine | Actinomadura sp. ATCC 39365
BGC0001374.1 |  | 0.45 | Other | thienodolin | Streptomyces albogriseolus
BGC0000294.1 |  | 0.44 | NRP | acinetobactin | Acinetobacter baumannii

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
c00019_NZ_QVMD.. - Region 1 - NRPS-like,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: 245,354 - 287,075 nt. (total: 41,722 nt) Show pHMM detection rules used
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX))
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
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 | cyclic-lactone-autoinducer | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0002002.1 |  |  | 0.50 | NRP | 1,6-phenazinedimethanol, fontizine A | Serratia fonticola
BGC0000328.1 |  |  | 0.47 | NRP | coronatine | Pseudomonas savastanoi pv. glycinea
BGC0000488.1 |  |  | 0.47 | RiPP | circularin A | Clostridium beijerinckii
BGC0000427.1 |  |  | 0.42 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000375.1 |  |  | 0.41 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000287.1 |  |  | 0.41 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001399.1 |  |  | 0.40 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001627.1 |  |  | 0.37 | NRP | isonitrile lipopeptides | Mycobacterium tuberculosis H37Rv
BGC0001479.1 |  |  | 0.36 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000599.1 |  |  | 0.35 | RiPP | thuricin CD α, thuricin CD β | Bacillus thuringiensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002002.1 |  | 0.63 | NRP | 1,6-phenazinedimethanol, fontizine A | Serratia fonticola
BGC0000328.1 |  | 0.60 | NRP | coronatine | Pseudomonas savastanoi pv. glycinea
BGC0000488.1 |  | 0.57 | RiPP | circularin A | Clostridium beijerinckii
BGC0000287.1 |  | 0.56 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0000599.1 |  | 0.55 | RiPP | thuricin CD α, thuricin CD β | Bacillus thuringiensis
BGC0001627.1 |  | 0.55 | NRP | isonitrile lipopeptides | Mycobacterium tuberculosis H37Rv
BGC0000427.1 |  | 0.54 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000375.1 |  | 0.53 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000942.1 |  | 0.52 | Other | petrobactin | Bacillus anthracis str. Ames
BGC0001399.1 |  | 0.52 | NRP | fellutamide B | Aspergillus nidulans FGSC A4

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.

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 1, location 245353 - 287075:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (gly)

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).

ctg19_245: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (8..379): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    NOTE: outside applicability domain
    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:
      sysHIaEtiK
    Nearest Stachelhaus code:
      aad
    Stachelhaus code match:
      40% (weak)
ctg19_249: gly
  Search NORINE for peptide: strict or relaxed
  AMP-binding (9..389): 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:
      DILQLGmVWK
    Nearest Stachelhaus code:
      gly
    Stachelhaus code match:
      90% (moderate)

c00019_NZ_QVMD.. - 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: 340,077 - 361,728 nt. (total: 21,652 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
--- | --- | --- | --- | --- | ---
BGC0001540.1 |  | 0.15 | Other | CC-1065 | Streptomyces zelensis
BGC0001607.1 |  | 0.15 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0000466.1 |  | 0.14 | NRP | yatakemycin | Streptomyces sp. TP-A2060
BGC0000842.1 |  | 0.14 | Other (Non-NRP beta-lactam) | carbapenem MM4550 | Streptomyces argenteolus
BGC0001591.1 |  | 0.10 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.10 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000613.1 |  | 0.10 | RiPP | thiomuracin A | Nonomuraea sp. Bp3714-39
BGC0001155.1 |  | 0.08 | RiPP | GE2270 | Planobispora rosea
BGC0000604.1 |  | 0.08 | RiPP | GE2270A | Nonomuraea sp. WU8817
BGC0001558.1 |  | 0.04 | Polyketide | cosmomycin C | Streptomyces sp. CNT302

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001540.1 |  | 0.45 | Other | CC-1065 | Streptomyces zelensis
BGC0001607.1 |  | 0.45 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0000466.1 |  | 0.44 | NRP | yatakemycin | Streptomyces sp. TP-A2060
BGC0000842.1 |  | 0.43 | Other (Non-NRP beta-lactam) | carbapenem MM4550 | Streptomyces argenteolus
BGC0001591.1 |  | 0.36 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.36 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000613.1 |  | 0.35 | RiPP | thiomuracin A | Nonomuraea sp. Bp3714-39
BGC0001155.1 |  | 0.32 | RiPP | GE2270 | Planobispora rosea
BGC0000604.1 |  | 0.31 | RiPP | GE2270A | Nonomuraea sp. WU8817
BGC0001558.1 |  | 0.20 | Polyketide | cosmomycin C | Streptomyces sp. CNT302

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
c00020_NZ_QVMD.. - Region 1 - 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: 67,407 - 120,709 nt. (total: 53,303 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
--- | --- | --- | --- | --- | ---
BGC0001399.1 |  | 0.31 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0000373.1 |  | 0.28 | NRP | holomycin | Streptomyces clavuligerus ATCC 27064
BGC0001343.1 |  | 0.24 | Polyketide | aurachin A, aurachin D | Stigmatella aurantiaca Sg a15
BGC0000343.1 |  | 0.24 | NRP | enterobactin | Pseudomonas sp. J465
BGC0001469.1 |  | 0.24 | NRP | marthiapeptide A | Brevibacillus sp. Leaf182
BGC0001444.1 |  | 0.23 | Other | caboxamycin | Streptomyces sp. NTK 937
BGC0001538.1 |  | 0.23 | NRP, Polyketide | caboxamycin | Streptomyces sp. NTK 937
BGC0000410.1 |  | 0.23 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001591.1 |  | 0.22 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.22 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001399.1 |  | 0.64 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0000373.1 |  | 0.61 | NRP | holomycin | Streptomyces clavuligerus ATCC 27064
BGC0001343.1 |  | 0.58 | Polyketide | aurachin A, aurachin D | Stigmatella aurantiaca Sg a15
BGC0000343.1 |  | 0.58 | NRP | enterobactin | Pseudomonas sp. J465
BGC0001469.1 |  | 0.57 | NRP | marthiapeptide A | Brevibacillus sp. Leaf182
BGC0001444.1 |  | 0.56 | Other | caboxamycin | Streptomyces sp. NTK 937
BGC0001538.1 |  | 0.56 | NRP, Polyketide | caboxamycin | Streptomyces sp. NTK 937
BGC0000410.1 |  | 0.56 | NRP | pseudomonine | Pseudomonas fluorescens
BGC0001591.1 |  | 0.55 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.55 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2

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.

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 1, location 67406 - 120709:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (cys - cys) + (cys)

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).

ctg20_83: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (24..424): X
  NRPSPredictor2: dhb, sal
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      N/A
    Small clusters prediction:
      dhb, sal
    Single AA prediction:
      N/A
  Stachelhaus prediction details:
    Stachelhaus sequence:
      PLPgiGqVmK
    Nearest Stachelhaus code:
      dhb
    Stachelhaus code match:
      60% (weak)
ctg20_87: cys - cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (548..944): 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:
      DLYNLSmIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
  AMP-binding (1969..2368): 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)
ctg20_88: cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (528..920): 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:
      DLFNLSLIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      100% (strong)

c00022_NZ_QVMD.. - Region 1 - nucleoside
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: 129,999 - 151,003 nt. (total: 21,005 nt) Show pHMM detection rules used
nucleoside: (LipM or LipV or LipU or ToyB or TunD or pur6 or pur10 or nikJ or nikO or truD)

#### 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 | nucleoside | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001862.1 |  | 0.20 | RiPP | geocillicin | Aeribacillus pallidus
BGC0001930.1 |  | 0.20 | RiPP | pallidocin | Aeribacillus pallidus
BGC0000938.1 |  | 0.18 | Other (Aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0000600.1 |  | 0.17 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001579.1 |  | 0.17 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0000554.1 |  | 0.16 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001526.1 |  | 0.16 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001120.1 |  | 0.16 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001525.1 |  | 0.16 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0000563.1 |  | 0.16 | RiPP | venezuelin | Streptomyces venezuelae ATCC 10712

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001862.1 |  | 0.52 | RiPP | geocillicin | Aeribacillus pallidus
BGC0001930.1 |  | 0.52 | RiPP | pallidocin | Aeribacillus pallidus
BGC0000938.1 |  | 0.49 | Other (Aminocoumarin) | fosfomycin | Streptomyces fradiae
BGC0000600.1 |  | 0.47 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001579.1 |  | 0.47 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0000554.1 |  | 0.47 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001526.1 |  | 0.47 | Other | bartolosides E, bartolosides F, bartolosides G, bartolosides H, bartolosides I, bartolosides J, bartolosides K | Synechocystis salina LEGE 06099
BGC0001120.1 |  | 0.47 | NRP, Polyketide | burkholderic acid | Burkholderia thailandensis E264
BGC0001525.1 |  | 0.47 | Other | bartoloside 2, bartoloside 3, bartoloside 4 | Synechocystis salina LEGE 06155
BGC0000563.1 |  | 0.47 | 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.

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