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Overview
3.1
4.1

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

NZ_BDCR01000003 (original name was: NZ_BDCR01000003.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 3.1 | lassopeptide | 563,575 | 585,894 |

NZ_BDCR01000004 (original name was: NZ_BDCR01000004.1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 4.1 | NAPAA | 769,167 | 803,063 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 3.1 | lassopeptide | 563,575 | 585,894 |
Region 4.1 | NAPAA | 769,167 | 803,063 |

No secondary metabolite regions were found in these records:
  NZ_BDCR01000001 (original name was: NZ_BDCR01000001.1)
  NZ_BDCR01000002 (original name was: NZ_BDCR01000002.1)

Compact view
c00003_NZ_BDCR.. - Region 1 - lassopeptide
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: 563,575 - 585,894 nt. (total: 22,320 nt) Show pHMM detection rules used
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

#### 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
Lasso peptides
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 | lassopeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001634.1 |  | 0.33 | RiPP | keywimysin | Streptomyces sp. NRRL F-5702
BGC0001176.1 |  | 0.33 | RiPP | streptomonomicin | Streptomonospora alba
BGC0001549.1 |  | 0.32 | RiPP | citrulassin B | Streptomyces aurantiacus JA 4570
BGC0001550.1 |  | 0.31 | RiPP | citrulassin D | Streptomyces katrae
BGC0001645.1 |  | 0.30 | RiPP | lagmysin | Streptomyces sp. NRRL S-118
BGC0001889.1 |  | 0.29 | RiPP | fusilassin | Thermobifida fusca YX
BGC0001551.1 |  | 0.28 | RiPP | citrulassin E | Streptomyces glaucescens
BGC0000571.1 |  | 0.27 | RiPP | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001496.1 |  | 0.27 | RiPP | actinokineosin | Actinokineospora spheciospongiae
BGC0001639.1 |  | 0.24 | RiPP | klebsidin | Klebsiella pneumoniae

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001634.1 |  | 0.66 | RiPP | keywimysin | Streptomyces sp. NRRL F-5702
BGC0001176.1 |  | 0.66 | RiPP | streptomonomicin | Streptomonospora alba
BGC0001549.1 |  | 0.65 | RiPP | citrulassin B | Streptomyces aurantiacus JA 4570
BGC0001550.1 |  | 0.65 | RiPP | citrulassin D | Streptomyces katrae
BGC0001645.1 |  | 0.64 | RiPP | lagmysin | Streptomyces sp. NRRL S-118
BGC0001889.1 |  | 0.62 | RiPP | fusilassin | Thermobifida fusca YX
BGC0001551.1 |  | 0.61 | RiPP | citrulassin E | Streptomyces glaucescens
BGC0000571.1 |  | 0.61 | RiPP | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001496.1 |  | 0.60 | RiPP | actinokineosin | Actinokineospora spheciospongiae
BGC0001639.1 |  | 0.58 | RiPP | klebsidin | Klebsiella pneumoniae

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.

Lasso peptide 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.

#### Lassopeptide(s) for ctg3_515 - Putative Class II

ctg3_515 leader / core peptide / cleaved tail
  MNEQREKKEWISPEIIDLDVMETAGTK - L T Y L S S E Y DTYTGPS

#### Legend:

Red: Putative macrolactam
Purple: Putative cleaved off residues
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
Lasso peptides
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of disulfide bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.

ctg3_515 - Class II
  Cleavage pHMM score: -9.40
  RODEO score: 17
  Monoisotopic mass: 1677.7 Da
  Molecular weight: 1678.7 Da
  Number of bridges: 0

c00004_NZ_BDCR.. - Region 1 - NAPAA
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: 769,167 - 803,063 nt. (total: 33,897 nt) Show pHMM detection rules used
NAPAA: (AMP-binding and PP-binding and TIGR02353)

#### 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 | NAPAA | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.22 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000375.1 |  | 0.22 | NRP | indigoidine | Streptomyces chromofuscus
BGC0001399.1 |  | 0.21 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001479.1 |  | 0.19 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000851.1 |  | 0.19 | Other | albonoursin | Streptomyces noursei ATCC 11455
BGC0001844.1 |  | 0.18 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.18 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.1 |  | 0.18 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.1 |  | 0.18 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001131.1 |  | 0.18 | NRP | ambactin | Xenorhabdus miraniensis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000427.1 |  | 0.55 | NRP | shinorine, 4-deoxygadusol, mycosporine glycine | Trichormus variabilis ATCC 29413
BGC0000375.1 |  | 0.54 | NRP | indigoidine | Streptomyces chromofuscus
BGC0001399.1 |  | 0.54 | NRP | fellutamide B | Aspergillus nidulans FGSC A4
BGC0001479.1 |  | 0.51 | NRP | anabaenopeptin NZ857, nostamide A | Nostoc punctiforme PCC 73102
BGC0000851.1 |  | 0.51 | Other | albonoursin | Streptomyces noursei ATCC 11455
BGC0001844.1 |  | 0.50 | NRP | holrhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001641.1 |  | 0.50 | NRP | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.1 |  | 0.50 | NRP | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.1 |  | 0.50 | NRP | luminmide | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001131.1 |  | 0.50 | NRP | ambactin | Xenorhabdus miraniensis

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 769166 - 803063:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (X)

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).

ctg4_641: X
  Search NORINE for peptide: strict or relaxed
  AMP-binding (11..405): X
  NRPSPredictor2: (unknown)
  SVM prediction details:
    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:
      DAESIGtViK
    Nearest Stachelhaus code:
      lys
    Stachelhaus code match:
      80% (moderate)