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Overview
1.1
1.2
2.1
3.1

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

NZ_HE978580.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | ranthipeptide | 215,308 | 236,888 |
Region 1.2 | RiPP-like | 615,478 | 626,266 |

NZ_HE978581.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 2.1 | ranthipeptide | 171,812 | 193,355 |

NZ_HE978582.1

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 3.1 | NRPS | 181,809 | 230,786 | equibactin | NRP | 35%

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | ranthipeptide | 215,308 | 236,888 |
Region 1.2 | RiPP-like | 615,478 | 626,266 |
Region 2.1 | ranthipeptide | 171,812 | 193,355 |
Region 3.1 | NRPS | 181,809 | 230,786 | equibactin | NRP | 35%

No secondary metabolite regions were found in these records:
  NZ_HE978583.1
  NZ_HE978584.1

Compact view
NZ_HE978580.1 - 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: 215,308 - 236,888 nt. (total: 21,581 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
--- | --- | --- | --- | --- | ---
BGC0000491.1 |  | 0.16 | RiPP | gassericin A | Lactobacillus gasseri
BGC0001222.1 |  | 0.16 | RiPP | acidocin B | Lactobacillus acidophilus
BGC0000486.1 |  | 0.16 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0001579.1 |  | 0.16 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0001743.1 |  | 0.16 | RiPP | plantaricyclin | Lactobacillus plantarum
BGC0000616.1 |  | 0.15 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000558.1 |  | 0.15 | RiPP | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000551.1 |  | 0.15 | RiPP | SapB | Streptomyces coelicolor A3(2)
BGC0000554.1 |  | 0.15 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000601.1 |  | 0.14 | RiPP | sporulation killing factor | Bacillus subtilis subsp. subtilis str. 168

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000491.1 |  | 0.47 | RiPP | gassericin A | Lactobacillus gasseri
BGC0001222.1 |  | 0.47 | RiPP | acidocin B | Lactobacillus acidophilus
BGC0000486.1 |  | 0.47 | RiPP | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0001579.1 |  | 0.46 | RiPP | duramycin | Streptomyces cinnamoneus
BGC0001743.1 |  | 0.46 | RiPP | plantaricyclin | Lactobacillus plantarum
BGC0000616.1 |  | 0.46 | RiPP | amylocyclicin | Bacillus velezensis FZB42
BGC0000558.1 |  | 0.46 | RiPP | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000551.1 |  | 0.46 | RiPP | SapB | Streptomyces coelicolor A3(2)
BGC0000554.1 |  | 0.46 | RiPP | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000601.1 |  | 0.44 | RiPP | sporulation killing factor | Bacillus subtilis subsp. subtilis str. 168

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
NZ_HE978580.1 - Region 2 - 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: 615,478 - 626,266 nt. (total: 10,789 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
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
--- | --- | --- | --- | --- | ---
BGC0000249.1 |  | 0.16 | Polyketide | nogalamycin | Streptomyces nogalater
BGC0000243.1 |  | 0.16 | Polyketide | macrotetrolide | Streptomyces griseus subsp. griseus
BGC0000922.1 |  | 0.16 | Other | pseudomonas quinolone signal (PQS) | Pseudomonas aeruginosa PAO1
BGC0001342.1 |  | 0.06 | NRP, Polyketide | Cmc-thuggacin A, Cmc-thuggacin B | Chondromyces crocatus
BGC0001300.1 |  | 0.05 | Polyketide | anthracimycin | Streptomyces sp. CNH365
BGC0000075.1 |  | 0.05 | Polyketide | hygrocin A, hygrocin B | Streptomyces sp. LZ35
BGC0000203.1 |  | 0.04 | Polyketide | BE-7585A | Amycolatopsis orientalis subsp. vinearia

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000249.1 |  | 0.47 | Polyketide | nogalamycin | Streptomyces nogalater
BGC0000243.1 |  | 0.46 | Polyketide | macrotetrolide | Streptomyces griseus subsp. griseus
BGC0000922.1 |  | 0.46 | Other | pseudomonas quinolone signal (PQS) | Pseudomonas aeruginosa PAO1
BGC0001342.1 |  | 0.25 | NRP, Polyketide | Cmc-thuggacin A, Cmc-thuggacin B | Chondromyces crocatus
BGC0001300.1 |  | 0.22 | Polyketide | anthracimycin | Streptomyces sp. CNH365
BGC0000075.1 |  | 0.21 | Polyketide | hygrocin A, hygrocin B | Streptomyces sp. LZ35
BGC0000203.1 |  | 0.20 | Polyketide | BE-7585A | Amycolatopsis orientalis subsp. vinearia

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
NZ_HE978581.1 - 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: 171,812 - 193,355 nt. (total: 21,544 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
--- | --- | --- | --- | --- | ---
BGC0000599.1 |  | 0.16 | RiPP | thuricin CD α, thuricin CD β | Bacillus thuringiensis
BGC0001540.1 |  | 0.14 | Other | CC-1065 | Streptomyces zelensis
BGC0001607.1 |  | 0.14 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0000466.1 |  | 0.13 | NRP | yatakemycin | Streptomyces sp. TP-A2060
BGC0001887.1 |  | 0.13 | RiPP | huazacin | Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0000695.1 |  | 0.09 | Saccharide | fortimicin | Micromonospora olivasterospora
BGC0001591.1 |  | 0.07 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.07 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001190.1 |  | 0.07 | Polyketide | fusaric acid | Fusarium verticillioides 7600
BGC0000027.1 |  | 0.06 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000599.1 |  | 0.47 | RiPP | thuricin CD α, thuricin CD β | Bacillus thuringiensis
BGC0001540.1 |  | 0.44 | Other | CC-1065 | Streptomyces zelensis
BGC0001607.1 |  | 0.43 | Other | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0000466.1 |  | 0.42 | NRP | yatakemycin | Streptomyces sp. TP-A2060
BGC0001887.1 |  | 0.41 | RiPP | huazacin | Bacillus thuringiensis serovar huazhongensis BGSC 4BD1
BGC0000695.1 |  | 0.33 | Saccharide | fortimicin | Micromonospora olivasterospora
BGC0001591.1 |  | 0.28 | Other | fatty acid enol ester | uncultured bacterium CSLC2
BGC0001688.1 |  | 0.28 | Other | N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0001190.1 |  | 0.27 | Polyketide | fusaric acid | Fusarium verticillioides 7600
BGC0000027.1 |  | 0.26 | Polyketide | ankaflavin, monascin, rubropunctatine, monascorubrin | Monascus pilosus

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
NZ_HE978582.1 - 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: 181,809 - 230,786 nt. (total: 48,978 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
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.32 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000375.1 |  | 0.32 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000900.1 |  | 0.31 | Other | ferrichrome | Aspergillus oryzae
BGC0000347.1 |  | 0.28 | NRP | equibactin | Streptococcus equi subsp. equi
BGC0000876.1 |  | 0.28 | Other | neopolyoxin C | Streptomyces tendae
BGC0001479.1 |  | 0.26 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000287.1 |  | 0.26 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001717.1 |  | 0.26 | Alkaloid | okaramine B | Penicillium simplicissimum
BGC0001399.1 |  | 0.26 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0000980.1 |  | 0.25 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 22D11

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.66 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000375.1 |  | 0.65 | NRP | indigoidine | Streptomyces chromofuscus
BGC0000900.1 |  | 0.64 | Other | ferrichrome | Aspergillus oryzae
BGC0000347.1 |  | 0.61 | NRP | equibactin | Streptococcus equi subsp. equi
BGC0000876.1 |  | 0.61 | Other | neopolyoxin C | Streptomyces tendae
BGC0001479.1 |  | 0.60 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000287.1 |  | 0.59 | NRP | L-2-amino-4-methoxy-trans-3-butenoic acid | Pseudomonas aeruginosa PAO1
BGC0001717.1 |  | 0.59 | Alkaloid | okaramine B | Penicillium simplicissimum
BGC0001399.1 |  | 0.59 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0000980.1 |  | 0.59 | NRP, Polyketide | cylindrospermopsin | Aphanizomenon sp. 22D11

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.
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 181808 - 230786:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (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).

ctg3_222: cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (521..918): 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:
      DLYNiSMIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
ctg3_223: cys
  Search NORINE for peptide: strict or relaxed
  AMP-binding (5..338): 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:
      DLYdMSMIWK
    Nearest Stachelhaus code:
      cys
    Stachelhaus code match:
      90% (moderate)
ctg3_225: dhb
  Search NORINE for peptide: strict or relaxed
  AMP-binding (27..433): dhb
  NRPSPredictor2: dhb
  SVM prediction details:
    Predicted physicochemical class:
      N/A
    Large clusters prediction:
      dhb, sal
    Small clusters prediction:
      dhb, sal
    Single AA prediction:
      dhb
  Stachelhaus prediction details:
    Stachelhaus sequence:
      vLPAQGlVmK
    Nearest Stachelhaus code:
      dhb
    Stachelhaus code match:
      70% (weak)