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Overview
1.1
1.2
1.3

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

NZ_CP066049.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1 | thiopeptide | 1,510,345 | 1,540,507 |
Region 2 | RRE-containing | 1,990,615 | 2,010,878 |
Region 3 | RiPP-like | 2,402,195 | 2,412,989 |

NZ_CP066049.1 - Region 1 - 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: 1,510,345 - 1,540,507 nt. (total: 30,163 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)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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 | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000783.1 |  | 0.18 | Saccharide | O-antigen | Xanthomonas oryzae pv. oryzae
BGC0000886.1 |  | 0.18 | Other | allylmalonyl-CoA | Streptomyces tsukubensis
BGC0000774.1 |  | 0.17 | Saccharide | lipopolysaccharide | Xanthomonas campestris pv. campestris
BGC0000207.1 |  | 0.15 | Polyketide | chartreusin | Streptomyces chartreusis
BGC0001472.1 |  | 0.15 | RiPP | berninamycin A | Streptomyces bernensis
BGC0000815.1 |  | 0.14 | Alkaloid | loline | Epichloe uncinata
BGC0001314.1 |  | 0.13 | Terpene | tirucalla | Arabidopsis thaliana
BGC0001985.1 |  | 0.13 | Other | pyrazomycin | Streptomyces candidus
BGC0000615.1 |  | 0.12 | RiPP | TP-1161 | Nocardiopsis sp. TFS65-07
BGC0000259.1 |  | 0.12 | Polyketide | prodigiosin | Serratia marcescens

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000783.1 |  | 0.50 | Saccharide | O-antigen | Xanthomonas oryzae pv. oryzae
BGC0000886.1 |  | 0.50 | Other | allylmalonyl-CoA | Streptomyces tsukubensis
BGC0000774.1 |  | 0.49 | Saccharide | lipopolysaccharide | Xanthomonas campestris pv. campestris
BGC0000207.1 |  | 0.45 | Polyketide | chartreusin | Streptomyces chartreusis
BGC0001472.1 |  | 0.45 | RiPP | berninamycin A | Streptomyces bernensis
BGC0000815.1 |  | 0.43 | Alkaloid | loline | Epichloe uncinata
BGC0001314.1 |  | 0.41 | Terpene | tirucalla | Arabidopsis thaliana
BGC0001985.1 |  | 0.41 | Other | pyrazomycin | Streptomyces candidus
BGC0000615.1 |  | 0.40 | RiPP | TP-1161 | Nocardiopsis sp. TFS65-07
BGC0000259.1 |  | 0.40 | Polyketide | prodigiosin | Serratia marcescens

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.
NZ_CP066049.1 - Region 2 - 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: 1,990,615 - 2,010,878 nt. (total: 20,264 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
TTA codons
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
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
--- | --- | --- | --- | --- | ---
BGC0001550.1 |  | 0.20 | RiPP | citrulassin D | Streptomyces katrae
BGC0001549.1 |  | 0.20 | RiPP | citrulassin B | Streptomyces aurantiacus JA 4570
BGC0001552.1 |  | 0.20 | RiPP | citrulassin F | Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000600.1 |  | 0.18 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001548.1 |  | 0.18 | RiPP | citrulassin A | Streptomyces albulus
BGC0001210.1 |  | 0.17 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000527.1 |  | 0.17 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000539.1 |  | 0.17 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0001364.1 |  | 0.17 | RiPP | cinnamycin B | Actinomadura atramentaria DSM 43919
BGC0000563.1 |  | 0.17 | RiPP | venezuelin | Streptomyces venezuelae ATCC 10712

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001550.1 |  | 0.53 | RiPP | citrulassin D | Streptomyces katrae
BGC0001549.1 |  | 0.53 | RiPP | citrulassin B | Streptomyces aurantiacus JA 4570
BGC0001552.1 |  | 0.53 | RiPP | citrulassin F | Streptomyces avermitilis MA-4680 = NBRC 14893
BGC0000600.1 |  | 0.49 | RiPP | thurincin H | Bacillus thuringiensis
BGC0001548.1 |  | 0.49 | RiPP | citrulassin A | Streptomyces albulus
BGC0001210.1 |  | 0.49 | RiPP | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000527.1 |  | 0.49 | RiPP | mersacidin | Bacillus sp. HIL-Y85/54728
BGC0000539.1 |  | 0.49 | RiPP | nukacin ISK-1 | Staphylococcus warneri
BGC0001364.1 |  | 0.48 | RiPP | cinnamycin B | Actinomadura atramentaria DSM 43919
BGC0000563.1 |  | 0.48 | 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
NZ_CP066049.1 - Region 3 - RiPP-like
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: 2,402,195 - 2,412,989 nt. (total: 10,795 nt) Show pHMM detection rules used
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
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 | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001882.1 |  | 0.18 | Polyketide | chrysoxanthone A, chrysoxanthone B, chrysoxanthone C | Penicillium rubens Wisconsin 54-1255
BGC0000628.1 |  | 0.06 | RiPP | lactocillin | Lactobacillus paragasseri JV-V03

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001882.1 |  | 0.50 | Polyketide | chrysoxanthone A, chrysoxanthone B, chrysoxanthone C | Penicillium rubens Wisconsin 54-1255
BGC0000628.1 |  | 0.24 | RiPP | lactocillin | Lactobacillus paragasseri JV-V03

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