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Overview
4.1
4.2
4.3

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

NZ_JYGE01000003 (original name was: NZ_JYGE01000003.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 4.1 | ranthipeptide | 134,794 | 152,188 |
Region 4.2 | ranthipeptide | 198,612 | 219,985 |
Region 4.3 | NRPS | 431,012 | 473,207 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 4.1 | ranthipeptide | 134,794 | 152,188 |
Region 4.2 | ranthipeptide | 198,612 | 219,985 |
Region 4.3 | NRPS | 431,012 | 473,207 |

No secondary metabolite regions were found in these records:
  NZ_JYGE01000012 (original name was: NZ_JYGE01000012.1)
  NZ_JYGE01000001 (original name was: NZ_JYGE01000001.1)
  NZ_JYGE01000002 (original name was: NZ_JYGE01000002.1)
  NZ_JYGE01000004 (original name was: NZ_JYGE01000004.1)
  NZ_JYGE01000005 (original name was: NZ_JYGE01000005.1)
  NZ_JYGE01000006 (original name was: NZ_JYGE01000006.1)
  NZ_JYGE01000007 (original name was: NZ_JYGE01000007.1)
  NZ_JYGE01000008 (original name was: NZ_JYGE01000008.1)
  NZ_JYGE01000009 (original name was: NZ_JYGE01000009.1)
  NZ_JYGE01000010 (original name was: NZ_JYGE01000010.1)
  NZ_JYGE01000011 (original name was: NZ_JYGE01000011.1)

Compact view
c00004_NZ_JYGE.. - 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: 134,794 - 152,188 nt. (total: 17,395 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:

No matches found.

No matches found.

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
c00004_NZ_JYGE.. - 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: 198,612 - 219,985 nt. (total: 21,374 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 |  | 0.18 | Other | nucleocidin | Streptomyces calvus
BGC0001607.1 |  | 0.15 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0001540.1 |  | 0.14 | Other | CC-1065 | Streptomyces zelensis
BGC0001887.1 |  | 0.14 | RiPP | huazacin | Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0001860.1 |  | 0.07 | RiPP | thiomuracin | Thermobispora bispora DSM 43833
BGC0000613.1 |  | 0.07 | RiPP | thiomuracin A | Nonomuraea sp. Bp3714-39
BGC0001591.1 |  | 0.07 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.07 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000604.1 |  | 0.07 | RiPP | GE2270A | Nonomuraea sp. WU8817
BGC0001155.1 |  | 0.07 | RiPP | GE2270 | Planobispora rosea

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001387.1 |  | 0.50 | Other | nucleocidin | Streptomyces calvus
BGC0001607.1 |  | 0.45 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0001540.1 |  | 0.44 | Other | CC-1065 | Streptomyces zelensis
BGC0001887.1 |  | 0.44 | RiPP | huazacin | Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0001860.1 |  | 0.29 | RiPP | thiomuracin | Thermobispora bispora DSM 43833
BGC0000613.1 |  | 0.29 | RiPP | thiomuracin A | Nonomuraea sp. Bp3714-39
BGC0001591.1 |  | 0.28 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.28 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000604.1 |  | 0.28 | RiPP | GE2270A | Nonomuraea sp. WU8817
BGC0001155.1 |  | 0.27 | RiPP | GE2270 | Planobispora rosea

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
c00004_NZ_JYGE.. - Region 3 - 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: 431,012 - 473,207 nt. (total: 42,196 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
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
--- | --- | --- | --- | --- | ---
BGC0001739.1 |  | 0.23 | Other | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0000846.1 |  | 0.21 | Other | tabtoxin | Pseudomonas syringae
BGC0000937.1 |  | 0.19 | Other | fosfazinomycin A | Streptomyces sp. WM6372
BGC0000885.1 |  | 0.19 | Other | 4-hydroxy-3-nitrosobenzamide | Streptomyces murayamaensis
BGC0001135.1 |  | 0.18 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001479.1 |  | 0.18 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001128.1 |  | 0.18 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000842.1 |  | 0.17 | Other (Non-NRP beta-lactam) | carbapenem MM4550 | Streptomyces argenteolus
BGC0001844.1 |  | 0.17 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.17 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001739.1 |  | 0.56 | Other | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0000846.1 |  | 0.54 | Other | tabtoxin | Pseudomonas syringae
BGC0000937.1 |  | 0.52 | Other | fosfazinomycin A | Streptomyces sp. WM6372
BGC0000885.1 |  | 0.51 | Other | 4-hydroxy-3-nitrosobenzamide | Streptomyces murayamaensis
BGC0001135.1 |  | 0.49 | NRP | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001479.1 |  | 0.49 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0001128.1 |  | 0.49 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000842.1 |  | 0.49 | Other (Non-NRP beta-lactam) | carbapenem MM4550 | Streptomyces argenteolus
BGC0001844.1 |  | 0.49 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.49 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1

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