Select genomic region:
Overview
1.1
1.2
1.3
1.4
1.5
1.6
1.7
1.8
1.9
1.10
1.11
1.12
1.13
1.14
1.15

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

NZ_CP033054.1 (Bacillus velezensis)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | NRPS | 563,709 | 629,116 | High | surfactin | NRPS:Type I
Region 1.2 | phosphonate | 890,534 | 902,681 |
Region 1.3 | PKS-like | 1,193,854 | 1,235,098 |  |
Region 1.4 | terpene | 1,317,764 | 1,338,504 |
Region 1.5 | transAT-PKS | 1,690,129 | 1,778,359 | High | macrolactin H | PKS
Region 1.6 | transAT-PKS,T3PKS,NRPS | 2,001,891 | 2,112,002 | High | bacillaene | NRPS:Type I+PKS:Type I
Region 1.7 | NRPS,transAT-PKS,betalactone | 2,316,598 | 2,446,773 | High | fengycin | NRPS:Type I
Region 1.8 | terpene | 2,477,978 | 2,499,861 |
Region 1.9 | T3PKS | 2,580,831 | 2,621,931 |
Region 1.10 | transAT-PKS | 2,736,524 | 2,842,700 | High | difficidin | PKS
Region 1.11 | terpene-precursor | 2,866,022 | 2,886,912 |
Region 1.12 | terpene-precursor,NRP-metallophore,NRPS,RiPP-like | 3,466,434 | 3,531,873 | High | bacillibactin | NRPS:Type I
Region 1.13 | lanthipeptide-class-ii | 3,701,287 | 3,727,664 |
Region 1.14 | NRPS | 3,824,995 | 3,893,415 |
Region 1.15 | other | 4,097,107 | 4,138,525 | High | bacilysin | other:other

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | NRPS | 563,709 | 629,116 | High | surfactin | NRPS:Type I
Region 1.2 | phosphonate | 890,534 | 902,681 |
Region 1.3 | PKS-like | 1,193,854 | 1,235,098 |  |
Region 1.4 | terpene | 1,317,764 | 1,338,504 |
Region 1.5 | transAT-PKS | 1,690,129 | 1,778,359 | High | macrolactin H | PKS
Region 1.6 | transAT-PKS,T3PKS,NRPS | 2,001,891 | 2,112,002 | High | bacillaene | NRPS:Type I+PKS:Type I
Region 1.7 | NRPS,transAT-PKS,betalactone | 2,316,598 | 2,446,773 | High | fengycin | NRPS:Type I
Region 1.8 | terpene | 2,477,978 | 2,499,861 |
Region 1.9 | T3PKS | 2,580,831 | 2,621,931 |
Region 1.10 | transAT-PKS | 2,736,524 | 2,842,700 | High | difficidin | PKS
Region 1.11 | terpene-precursor | 2,866,022 | 2,886,912 |
Region 1.12 | terpene-precursor,NRP-metallophore,NRPS,RiPP-like | 3,466,434 | 3,531,873 | High | bacillibactin | NRPS:Type I
Region 1.13 | lanthipeptide-class-ii | 3,701,287 | 3,727,664 |
Region 1.14 | NRPS | 3,824,995 | 3,893,415 |
Region 1.15 | other | 4,097,107 | 4,138,525 | High | bacilysin | other:other

No secondary metabolite regions were found in these records:
  NZ_CP033053.1 (Bacillus velezensis)

Compact view
NZ_CP033054.1 - 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: 563,709 - 629,116 nt. (total: 65,408 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase electron transfer oxidoreductase reductase
D9777_RS02995: alkyl hydroperoxide reductase subunit

smcogs
  SMCOG1176: alkyl hydroperoxide reductase subunit

D9777_RS03010: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

D9777_RS03015: flavodoxin

smcogs
  SMCOG1134: flavodoxin

D9777_RS03020: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

D9777_RS03035: alcohol dehydrogenase

smcogs
  SMCOG1040: alcohol dehydrogenase

D9777_RS03190: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

Transferases: PPTase aminotransferase
D9777_RS03105: aminotransferase

smcogs
  SMCOG1019: aminotransferase

D9777_RS03110: 4'-phosphopantetheinyl transferase

smcogs
  SMCOG1012: 4'-phosphopantetheinyl transferase

Hydrolases: esterase
D9777_RS03100: thioesterase

smcogs
  SMCOG1004: thioesterase

Ligases: ligase synthase
D9777_RS03030: cobalamin synthesis protein/P47K family protein

smcogs
  SMCOG1178: cobalamin synthesis protein/P47K family protein

D9777_RS03085: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

D9777_RS03095: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS21700: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS21710: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas 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
--- | --- | --- | --- | --- | ---
BGC0000433.5 |  | 0.85 | NRPS | surfactin | Bacillus velezensis FZB42
BGC0001833.4 |  | 0.75 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001128.4 |  | 0.74 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0002075.3 |  | 0.73 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0002286.3 |  | 0.73 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5 |  | 0.73 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.72 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001825.4 |  | 0.72 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001758.4 |  | 0.72 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000433.5 |  | 0.85 | NRPS | surfactin | Bacillus velezensis FZB42
BGC0001833.4 |  | 0.75 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001128.4 |  | 0.74 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0002075.3 |  | 0.73 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0002286.3 |  | 0.73 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5 |  | 0.73 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.72 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001825.4 |  | 0.72 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001758.4 |  | 0.72 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.55 out of 29.38
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 24.80 out of 27.78
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.40 out of 20.97
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.50 out of 27.78
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.76 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.41 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.42 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.88 out of 26.06
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 18.07 out of 18.16
Confidence: strong
Additional weak hits (17):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.89 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.74 out of 32.74
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.52 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.40 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.84 out of 26.06
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 20.78 out of 29.38
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.38 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.99 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.72 out of 26.06
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 22.63 out of 36.54
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 21.56 out of 31.73
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.35 out of 30.25
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 19.92 out of 26.06
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.88 out of 31.73
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 23.04 out of 30.12
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 22.50 out of 35.63
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 21.97 out of 30.98
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
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 563708 - 629116:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Glu - Leu - D-Leu) + (Val) + (Asp - D-Leu) + (Leu)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS03085: Glu - Leu - Leu
Search NORINE for peptide: strict or relaxed
AMP-binding (465..867): Glu
nrpys: Glu

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    glu,gln (Glu, Gln)
  Single AA prediction:
    gln (Gln)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LSLAFDASVKQADGLIGGETNVYGPTETCVDASV
  Nearest Stachelhaus code(s):
    Glu DAKDLGVVDK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1511..1908): Leu
nrpys: Leu

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    leu (Leu)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TNTSFDAFMFDGMIMFGGELHMYGPSESTVFATY
  Nearest Stachelhaus code(s):
    Leu DAFMMGMVFK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (2550..2939): Leu
nrpys: Leu

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    leu (Leu)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LWHAFDASIWEPFLLVGGDVNNYGPTENTVVATS
  Nearest Stachelhaus code(s):
    Leu DAWFLGNVVK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS21700: Val
Search NORINE for peptide: strict or relaxed
AMP-binding (452..846): Val
nrpys: Val

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    val (Val)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LHSGFDAGTFEGWLIIGGDWNGYGPTENTTFSTS
  Nearest Stachelhaus code(s):
    Val DAFWIGGTFK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS21710: Asp - Leu
Search NORINE for peptide: strict or relaxed
AMP-binding (429..831): Asp
nrpys: Asp

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    asp,asn (Asp, Asn)
  Single AA prediction:
    asp (Asp)

Stachelhaus prediction details:
  Stachelhaus sequence:
    YWFSFDLGYTAPKLVLGGEINHYGPTETTIGAIA
  Nearest Stachelhaus code(s):
    Asp DLTKVGHIGK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1474..1863): Leu
nrpys: Leu

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    leu (Leu)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LWHAFDASIWEPFLLVGGDVNNYGPTENTVVATS
  Nearest Stachelhaus code(s):
    Leu DAWFLGNVVK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS03095: Leu
Search NORINE for peptide: strict or relaxed
AMP-binding (469..867): Leu
nrpys: Leu

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    leu (Leu)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LHVSFDAFTFDAFALFGGEINCYGPTEGTVFATA
  Nearest Stachelhaus code(s):
    Leu DAFFLGCVFK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1 | Ferric Uptake Regulator
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis

NZ_CP033054.1 - Region 2 - phosphonate
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: 890,534 - 902,681 nt. (total: 12,148 nt) Show pHMM detection rules used
phosphonate: (phosphonates and minimum(1, [2-Hacid_dh_C, Aldedh, Aminotran_1_2, Aminotran_5, AurF, CTP_transf_like, DUF4992, Fe-ADH, HMGL-like, Metallophos_2, NTP_transf_3, NTP_transf_5, PALP, PEP_mutase, TPP_enzyme_C, TPP_enzyme_N, phosphonates]) and not (phosphonatesHydrolase or phosphonatesMeIsocitrateLyase))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: aminotransferase
D9777_RS04670: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Lyases: lyase
D9777_RS04655: argininosuccinate lyase/adenylosuccinate lyase

smcogs
  SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Similar gene clusters
Shows areas 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 | phosphonate | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000897.5 |  | 0.46 | other (other) | dehydrophos | Streptomyces luridus
BGC0000904.5 |  | 0.44 | other (other) | FR-900098 | Streptomyces rubellomurinus
BGC0001859.4 |  | 0.44 | other (phosphonate) | fosfomycin | Pseudomonas syringae
BGC0002313.3 |  | 0.44 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0000926.5 |  | 0.43 | other (other) | rhizocticin A | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0001739.3 |  | 0.38 | other (other) | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0000937.5 |  | 0.38 | other (other) | fosfazinomycin A, fosfazinomycin B | Streptomyces sp. WM6372
BGC0002036.4 |  | 0.37 | other (other) | dehydrofosmidomycin | Streptomyces lavendulae
BGC0002294.3 |  | 0.36 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0001151.5 |  | 0.35 | other (non-nrp beta-lactam) | valclavam, (-)-2-(2-hydroxyethyl)clavam | Streptomyces antibioticus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000897.5 |  | 0.46 | other (other) | dehydrophos | Streptomyces luridus
BGC0000904.5 |  | 0.44 | other (other) | FR-900098 | Streptomyces rubellomurinus
BGC0001859.4 |  | 0.44 | other (phosphonate) | fosfomycin | Pseudomonas syringae
BGC0002313.3 |  | 0.44 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0000926.5 |  | 0.43 | other (other) | rhizocticin A | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0001739.3 |  | 0.38 | other (other) | phosphonoacetic Acid | Streptomyces sp. NRRL F-525
BGC0000937.5 |  | 0.38 | other (other) | fosfazinomycin A, fosfazinomycin B | Streptomyces sp. WM6372
BGC0002036.4 |  | 0.37 | other (other) | dehydrofosmidomycin | Streptomyces lavendulae
BGC0002294.3 |  | 0.36 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0001151.5 |  | 0.35 | other (non-nrp beta-lactam) | valclavam, (-)-2-(2-hydroxyethyl)clavam | Streptomyces antibioticus

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.57 out of 27.78
Confidence: medium
Additional weak hits (1):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.28 out of 30.25
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria

NZ_CP033054.1 - Region 3 - PKS-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: 1,193,854 - 1,235,098 nt. (total: 41,245 nt) Show pHMM detection rules used
PKS-like: (t2pks2 or ksIII)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
D9777_RS06215: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acyltransferase aminotransferase
D9777_RS06245: acyltransferase

smcogs
  SMCOG1141: acyltransferase

D9777_RS06260: aminotransferase

smcogs
  SMCOG1019: aminotransferase

Hydrolases: deacetylase
D9777_RS06305: polysaccharide deacetylase

smcogs
  SMCOG1235: polysaccharide deacetylase

Ligases: synthase
D9777_RS06265: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

Translocases: permease
D9777_RS06220: phenylalanine-specific permease

smcogs
  SMCOG1038: phenylalanine-specific permease

Similar gene clusters
Shows areas 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 | PKS-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002276.2 |  | 0.55 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0001928.2 |  | 0.50 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0002404.2 |  | 0.45 | other (other) | falcarindiol | Solanum lycopersicum
BGC0002294.3 |  | 0.44 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0000205.3 |  | 0.43 | PKS | bryostatin | Candidatus Endobugula sertula
BGC0002150.2 |  | 0.42 | ribosomal | triculamin | Streptomyces triculaminicus
BGC0002151.2 |  | 0.42 | ribosomal | alboverticillin | Streptomyces griseocarneus
BGC0000623.3 |  | 0.42 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0002306.2 |  | 0.42 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001206.5 |  | 0.42 | other (other) | indolmycin | Streptomyces griseus subsp. griseus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002276.2 |  | 0.55 | NRPS | choline | Aspergillus nidulans FGSC A4
BGC0001928.2 |  | 0.50 | other (other) | (2R,3S,4S)-5-fluoro-2,3,4-trihydroxypentanoic acid | Streptomyces sp. MA37
BGC0002404.2 |  | 0.45 | other (other) | falcarindiol | Solanum lycopersicum
BGC0002294.3 |  | 0.44 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus
BGC0000205.3 |  | 0.43 | PKS | bryostatin | Candidatus Endobugula sertula
BGC0002150.2 |  | 0.42 | ribosomal | triculamin | Streptomyces triculaminicus
BGC0002151.2 |  | 0.42 | ribosomal | alboverticillin | Streptomyces griseocarneus
BGC0000623.3 |  | 0.42 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0002306.2 |  | 0.42 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001206.5 |  | 0.42 | other (other) | indolmycin | Streptomyces griseus subsp. griseus

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.35 out of 26.06
Confidence: medium
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 25.91 out of 27.55
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.75 out of 27.78
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.81 out of 27.78
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.88 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.01 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.52 out of 26.06
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.50 out of 23.79
Confidence: medium
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 21.49 out of 25.88
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 24.27 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.83 out of 28.19
Confidence: medium
Additional weak hits (10):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.48 out of 29.38
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.02 out of 28.14
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.22 out of 26.06
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.28 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 23.97 out of 28.14
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.34 out of 30.25
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.75 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.41 out of 26.06
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 22.32 out of 33.14
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 20.59 out of 30.11
Confidence: weak
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
GnfM | Regulator of nitrogen-fixation genes
IolR | Regulator of the inositol catabolism
MogR | Repressor of flagellar motility genes
PsrA | Oleic acid responsive regulator
ZuR variant 1 | Zinc-responsive repressor

NZ_CP033054.1 - Region 4 - terpene
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: 1,317,764 - 1,338,504 nt. (total: 20,741 nt) Show pHMM detection rules used
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: oxidoreductase
D9777_RS06885: oxidoreductase

smcogs
  SMCOG1079: oxidoreductase

Hydrolases: hydrolase
D9777_RS06860: asparagine synthase (glutamine-hydrolyzing)

smcogs
  SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

Similar gene clusters
Shows areas 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 | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000885.3 |  | 0.46 | other (other) | 4-hydroxy-3-nitrosobenzamide | Streptomyces murayamaensis
BGC0000846.5 |  | 0.44 | other (other) | tabtoxin | Pseudomonas syringae
BGC0001880.3 |  | 0.41 | ribosomal | scytodecamide | Scytonema sp. UIC 10036
BGC0001374.5 |  | 0.38 | other (other) | thienodolin | Streptomyces albogriseolus
BGC0002285.2 |  | 0.33 | ribosomal | aborycin | Streptomyces sp. ZS0098
BGC0001810.3 |  | 0.33 | PKS | trehangelin | Polymorphospora rubra
BGC0000720.3 |  | 0.33 | saccharide | tobramycin | Streptoalloteichus tenebrarius
BGC0001735.5 |  | 0.33 | other (other) | pentostatine, vidarabine | Streptomyces antibioticus
BGC0002339.3 |  | 0.33 | terpene | 2-hydroxysorangiadenosine | Vitiosangium cumulatum
BGC0001007.5 |  | 0.32 | NRPS, PKS | lymphostin, neolymphostinol B, lymphostinol, neolymphostin b | Salinispora arenicola CNS-205

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000885.3 |  | 0.46 | other (other) | 4-hydroxy-3-nitrosobenzamide | Streptomyces murayamaensis
BGC0000846.5 |  | 0.44 | other (other) | tabtoxin | Pseudomonas syringae
BGC0001880.3 |  | 0.41 | ribosomal | scytodecamide | Scytonema sp. UIC 10036
BGC0001374.5 |  | 0.38 | other (other) | thienodolin | Streptomyces albogriseolus
BGC0002285.2 |  | 0.33 | ribosomal | aborycin | Streptomyces sp. ZS0098
BGC0001810.3 |  | 0.33 | PKS | trehangelin | Polymorphospora rubra
BGC0000720.3 |  | 0.33 | saccharide | tobramycin | Streptoalloteichus tenebrarius
BGC0001735.5 |  | 0.33 | other (other) | pentostatine, vidarabine | Streptomyces antibioticus
BGC0002339.3 |  | 0.33 | terpene | 2-hydroxysorangiadenosine | Vitiosangium cumulatum
BGC0001007.5 |  | 0.32 | NRPS, PKS | lymphostin, neolymphostinol B, lymphostinol, neolymphostin b | Salinispora arenicola CNS-205

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
triterpene | C30 carotenoid | diapophytoene | C30 | acyclic | none
triterpene |  | PSPP | C30 | acyclic | PP
triterpene |  | squalene | C30 | acyclic | none
tetraterpene | C40 carotenoid | phytoene | C40 | acyclic | none
triterpene |  | hydroxysqualene | C30 | acyclic | OH

Genes with terpene domains:
D9777_RS06865: PT_phytoene_like
Domain 1 (3 - 242): Prenyltransferase; Phytoene synthase like
Subtype: unknown

Reactions:
  FPP → diapophytoene
  FPP → PSPP
  FPP → squalene
  GGPP → phytoene
  PSPP → hydroxysqualene

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 20.47 out of 20.47
Confidence: strong
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.10 out of 26.85
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.88 out of 27.78
Confidence: medium
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 23.16 out of 26.33
Confidence: medium
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.29 out of 27.55
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 17.44 out of 20.97
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.46 out of 27.78
Confidence: medium
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 26.99 out of 35.63
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.27 out of 28.19
Confidence: medium
Additional weak hits (2):
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.16 out of 26.06
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.44 out of 31.73
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

Acronym | Full name
--- | ---
FPP | Farnesyl diphosphate
GGPP | Geranylgeranyl diphosphate
PP | Diphosphate
PSPP | Presqualene diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
GnfM | Regulator of nitrogen-fixation genes
NrtR | NAD synthesis repressor
RutR | Regulator of the pyrimidine and purine metabolism
VqsM | Regulator of quorum-sensing signalling systems
ZuR variant 1 | Zinc-responsive repressor

NZ_CP033054.1 - Region 5 - transAT-PKS
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: 1,690,129 - 1,778,359 nt. (total: 88,231 nt) Show pHMM detection rules used
transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase
D9777_RS09015: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS09025: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS09030: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS09040: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS09070: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

Transferases: acylase kinase
D9777_RS08900: PfkB domain protein

smcogs
  SMCOG1276: PfkB domain protein

D9777_RS09010: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: deacetylase deformylase hydrolase phosphatase
D9777_RS08985: hydrolase

smcogs
  SMCOG1179: hydrolase

D9777_RS08990: peptide deformylase

smcogs
  SMCOG1275: peptide deformylase

D9777_RS09045: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

D9777_RS09050: beta-lactamase

smcogs
  SMCOG1053: beta-lactamase

D9777_RS09080: polysaccharide deacetylase

smcogs
  SMCOG1235: polysaccharide deacetylase

D9777_RS09115: inositol monophosphatase

smcogs
  SMCOG1207: inositol monophosphatase

Ligases: synthase
D9777_RS09020: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

D9777_RS09060: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs
  SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

Similar gene clusters
Shows areas 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 | transAT-PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000181.5 |  | 0.90 | PKS | macrolactin H | Bacillus velezensis FZB42
BGC0001383.3 |  | 0.89 | PKS | macrolactin H, macrolactin B, macrolactin 1c, macrolactin E | Jeotgalibacillus marinus
BGC0001534.3 |  | 0.70 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0001276.3 |  | 0.64 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0001275.3 |  | 0.64 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001244.3 |  | 0.64 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0001273.3 |  | 0.63 | PKS | asperlactone | Aspergillus ochraceus
BGC0001164.3 |  | 0.63 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001160.5 |  | 0.63 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001284.4 |  | 0.63 | PKS | alternariol | Parastagonospora nodorum SN15

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000181.5 |  | 0.90 | PKS | macrolactin H | Bacillus velezensis FZB42
BGC0001383.3 |  | 0.89 | PKS | macrolactin H, macrolactin B, macrolactin 1c, macrolactin E | Jeotgalibacillus marinus
BGC0001534.3 |  | 0.70 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0001276.3 |  | 0.64 | PKS | 6-methylsalicyclic acid | Aspergillus terreus
BGC0001275.3 |  | 0.64 | PKS | 6-methylsalicyclic acid | Glarea lozoyensis
BGC0001244.3 |  | 0.64 | PKS | (-)-Mellein | Parastagonospora nodorum
BGC0001273.3 |  | 0.63 | PKS | asperlactone | Aspergillus ochraceus
BGC0001164.3 |  | 0.63 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001160.5 |  | 0.63 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001284.4 |  | 0.63 | PKS | alternariol | Parastagonospora nodorum SN15

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 25.63 out of 27.78
Confidence: strong
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.94 out of 21.55
Confidence: medium
Additional weak hits (8):
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.30 out of 26.06
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.56 out of 29.38
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.27 out of 30.22
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.96 out of 29.25
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.65 out of 29.25
Confidence: weak
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.35 out of 26.33
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 23.20 out of 31.73
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 22.99 out of 33.14
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
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 5, location 1690128 - 1778359:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:
  (ohmal - ccmal - ccmal) + (ccmal) + (ccmal - mal) + (ccmal - mal) + (ohmal) + (ohmal - mal)
Non-colinear ordering:
  D9777_RS09015 + D9777_RS09020 + D9777_RS09025 + D9777_RS09030 + D9777_RS09035 + D9777_RS09040 + D9777_RS09045

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS09010: mal
PKS_AT (4..282): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 75.0%
  inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 92.6
  inactive: 32.0
  Methoxymalonyl-CoA: 28.0
  Methylmalonyl-CoA: 20.8
  Propionyl-CoA: 17.4
  fatty_acid: 13.9
  trans-1,2-CPDA: 0.0
  Isobutyryl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArcA | Repressor of carbon oxidation
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
ToxT | Regulator of MSHA biosynthesis

NZ_CP033054.1 - Region 6 - NRPS,T3PKS,transAT-PKS
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: 2,001,891 - 2,112,002 nt. (total: 110,112 nt) Show pHMM detection rules used
transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxygenase
D9777_RS10275: alcohol dehydrogenase

smcogs
  SMCOG1040: alcohol dehydrogenase

D9777_RS10390: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS10410: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

Transferases: acylase
D9777_RS10350: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

D9777_RS10355: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

D9777_RS10360: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

Hydrolases: hydrolase protease
D9777_RS10255: beta-lactamase

smcogs
  SMCOG1053: beta-lactamase

D9777_RS10345: metallo-beta-lactamase family protein

smcogs
  SMCOG1170: metallo-beta-lactamase family protein

D9777_RS10430: alkaline serine protease, subtilase family

smcogs
  SMCOG1075: alkaline serine protease, subtilase family

Lyases: hydratase
D9777_RS10375: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

D9777_RS10380: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase
D9777_RS10280: 8-amino-7-oxononanoate synthase

smcogs
  SMCOG1109: 8-amino-7-oxononanoate synthase

D9777_RS10370: hydroxymethylglutaryl-CoA synthase

smcogs
  SMCOG1043: hydroxymethylglutaryl-CoA synthase

D9777_RS10385: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS10395: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

D9777_RS10400: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS10405: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

Similar gene clusters
Shows areas 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 | transAT-PKS | T3PKS | NRPS | NRPS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | --- | ---
BGC0001089.5 |  |  |  |  | 1.65 | NRPS, PKS | bacillaene | Bacillus velezensis FZB42
BGC0001160.5 |  |  |  |  | 1.03 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0002135.2 |  |  |  |  | 1.03 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001164.3 |  |  |  |  | 1.01 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001132.4 |  |  |  |  | 0.97 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001135.5 |  |  |  |  | 0.97 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001833.4 |  |  |  |  | 0.97 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  |  |  |  | 0.96 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  |  |  |  | 0.95 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  |  |  |  | 0.93 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001089.5 |  | 0.91 | NRPS, PKS | bacillaene | Bacillus velezensis FZB42
BGC0002135.2 |  | 0.70 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001132.4 |  | 0.69 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.69 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001825.4 |  | 0.68 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001128.4 |  | 0.68 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  | 0.67 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001135.5 |  | 0.67 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001758.4 |  | 0.66 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001641.4 |  | 0.65 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 19.78 out of 20.97
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.62 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.14 out of 27.78
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.60 out of 26.06
Confidence: medium
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.47 out of 21.55
Confidence: strong
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 22.51 out of 24.78
Confidence: strong
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 21.31 out of 25.88
Confidence: medium
Additional weak hits (14):
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.51 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.96 out of 26.06
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.16 out of 32.74
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.22 out of 28.14
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.08 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.45 out of 26.06
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 26.07 out of 39.62
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.67 out of 26.06
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.04 out of 30.25
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.39 out of 30.25
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 24.54 out of 36.54
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.53 out of 30.25
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 23.28 out of 28.14
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.10 out of 29.25
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
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 6, location 2001890 - 2112002:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (fatty_acid - Gly - ccmal - ohmal - mal) + (ccmal - mal - ohmal - mal) + (Me-ccmal - ohmal) + (Ala - ccmal - ccmal - Me-ccmal) + (mal - mal)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS10350: mal
PKS_AT (4..285): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 100.0
  inactive: 46.8
  Methoxymalonyl-CoA: 38.9
  Methylmalonyl-CoA: 25.3
  Propionyl-CoA: 23.1
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Isobutyryl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

D9777_RS10355: mal
PKS_AT (7..293): mal
ATSignature: (unknown)
No matches above 50%
minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 36.5
  inactive: 26.2
  Methoxymalonyl-CoA: 14.3
  Benzoyl-CoA: 13.9
  Methylmalonyl-CoA: 9.2
  Isobutyryl-CoA: 8.8
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Propionyl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

D9777_RS10360: mal
PKS_AT (4..282): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 87.5%
  inactive: 66.7%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 87.4
  inactive: 28.2
  Methoxymalonyl-CoA: 23.4
  Methylmalonyl-CoA: 10.9
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Propionyl-CoA: 0.0
  Isobutyryl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

D9777_RS10385: fatty_acid - Gly
Search NORINE for peptide: strict or relaxed
CAL_domain (74..476): fatty_acid
minowa: fatty_acid

Prediction, score:
  fatty_acid: 26.0
  NH2: 9.4
  shikimic_acid: 0.0
  Acetyl-CoA: 0.0
  AHBA: 0.0

AMP-binding (1145..1540): Gly
nrpys: Gly

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
  Single AA prediction:
    gly (Gly)

Stachelhaus prediction details:
  Stachelhaus sequence:
    FSMTFDIAALELQALCGGEWNMFGPTETTIWSAV
  Nearest Stachelhaus code(s):
    Gly DILQLGMIWK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS10400: Ala
Search NORINE for peptide: strict or relaxed
AMP-binding (492..896): Ala
nrpys: Ala

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    TFLTFDVSISEGNFMVAGEENIYGPTETSIYAAY
  Nearest Stachelhaus code(s):
    Ala DVSNMAIIYK (88% 8Å match)
  Stachelhaus code match:
    100% (strong)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArcA | Repressor of carbon oxidation
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 2 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes
PsrA | Oleic acid responsive regulator
ToxT | Regulator of MSHA biosynthesis

NZ_CP033054.1 - Region 7 - NRPS,betalactone,transAT-PKS
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: 2,316,598 - 2,446,773 nt. (total: 130,176 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))
betalactone: (HMGL-like and AMP-binding)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxygenase
D9777_RS11900: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS12000: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS12020: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

D9777_RS12095: acyl-CoA dehydrogenase

smcogs
  SMCOG1006: acyl-CoA dehydrogenase

Transferases: acylase aminotransferase carboxylase transferase
D9777_RS11995: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

D9777_RS12040: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

D9777_RS12055: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs
  SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

D9777_RS12065: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

D9777_RS12085: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Hydrolases: peptidase
D9777_RS12175: gamma-glutamyltranspeptidase

smcogs
  SMCOG1274: gamma-glutamyltranspeptidase

Lyases: hydratase
D9777_RS12070: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase
D9777_RS11980: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS11985: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

D9777_RS11990: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

D9777_RS12035: 8-amino-7-oxononanoate synthase

smcogs
  SMCOG1109: 8-amino-7-oxononanoate synthase

D9777_RS12075: 2-isopropylmalate synthase

smcogs
  SMCOG1271: 2-isopropylmalate synthase

D9777_RS12090: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

D9777_RS12110: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS12115: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

D9777_RS12120: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

D9777_RS12125: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas 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 | transAT-PKS | NRPS | betalactone | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | --- | ---
BGC0001090.5 |  |  |  |  | 1.63 | NRPS, PKS | bacillomycin D | Bacillus velezensis FZB42
BGC0001833.4 |  |  |  |  | 1.59 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0002135.2 |  |  |  |  | 1.59 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001128.4 |  |  |  |  | 1.50 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001132.4 |  |  |  |  | 1.50 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0002286.3 |  |  |  |  | 1.49 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  |  |  |  | 1.49 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001135.5 |  |  |  |  | 1.47 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001098.5 |  |  |  |  | 1.46 | NRPS, PKS | iturin | Bacillus subtilis
BGC0001758.4 |  |  |  |  | 1.45 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001095.5 |  | 0.93 | NRPS | fengycin | Bacillus velezensis FZB42
BGC0001090.5 |  | 0.92 | NRPS, PKS | bacillomycin D | Bacillus velezensis FZB42
BGC0001098.5 |  | 0.84 | NRPS, PKS | iturin | Bacillus subtilis
BGC0000407.5 |  | 0.81 | NRPS | plipastatin | Bacillus subtilis subsp. subtilis
BGC0000402.4 |  | 0.80 | NRPS | paenilarvin A, paenilarvin B, paenilarvin C | Paenibacillus larvae subsp. larvae DSM 25430
BGC0001103.5 |  | 0.79 | NRPS, PKS | mycosubtilin | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0001833.4 |  | 0.75 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001758.4 |  | 0.75 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0002071.2 |  | 0.74 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.87 out of 26.85
Confidence: medium
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.55 out of 18.46
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.55 out of 18.46
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 22.29 out of 27.55
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 20.32 out of 20.97
Confidence: strong
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.44 out of 32.93
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.67 out of 26.06
Confidence: medium
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 18.67 out of 20.01
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 20.83 out of 28.19
Confidence: medium
Additional weak hits (10):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.06 out of 29.38
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.52 out of 31.73
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.15 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.52 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.45 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.46 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.74 out of 26.06
Confidence: weak
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.44 out of 20.47
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.41 out of 29.38
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.89 out of 30.25
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
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 7, location 2316597 - 2446773:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Tyr - D-Thr) + (Glu - D-X) + (Pro - Gln - D-Tyr) + (Ile) + (fatty_acid - mal - Asn - D-Tyr) + (D-Asn - Ser - Glu - D-Ser) + (Thr)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 8, location 2316597 - 2393880:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (fatty_acid - mal - Asn - D-Tyr) + (D-Asn - Ser - Glu - D-Ser) + (Thr)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 9, location 2376793 - 2446773:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Tyr - D-Thr) + (Glu - D-X) + (Pro - Gln - D-Tyr) + (Ile)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS11980: Ser - Thr
Search NORINE for peptide: strict or relaxed
AMP-binding (267..674): Ser
nrpys: Ser

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    ser (Ser)
  Single AA prediction:
    ser (Ser)

Stachelhaus prediction details:
  Stachelhaus sequence:
    RWMTFDVSVWEWHFFASGEINLYGPTEATIDVSY
  Nearest Stachelhaus code(s):
    Ser DVWHFSLIDK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1789..2188): Thr
nrpys: Thr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    thr (Thr)
  Single AA prediction:
    thr (Thr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LNNHFDFSVWEGNQIFGGEINMYGITETTVHVTY
  Nearest Stachelhaus code(s):
    Thr DFWNIGMVHK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS11985: Tyr - Asn - Ser - Glu
Search NORINE for peptide: strict or relaxed
AMP-binding (268..662): Tyr
nrpys: Tyr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
  Large clusters prediction:
    Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
  Small clusters prediction:
    Polar aromatic ring (Tyr, bOH-Tyr)
  Single AA prediction:
    tyr (Tyr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    SWKYFDAFILNGSTVVGGENNEYGPTENSVVSTF
  Nearest Stachelhaus code(s):
    Tyr DALSVGEVVK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1779..2174): Asn
nrpys: Asn

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    asp,asn (Asp, Asn)
  Single AA prediction:
    asn (Asn)

Stachelhaus prediction details:
  Stachelhaus sequence:
    YWASFDLTVTSMKLIVGGECNEYGPTETVVGCMI
  Nearest Stachelhaus code(s):
    Asn DLTKIGEVGK (97% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (3287..3694): Ser
nrpys: Ser

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    ser (Ser)
  Single AA prediction:
    ser (Ser)

Stachelhaus prediction details:
  Stachelhaus sequence:
    RWMTFDVSVWEWHFFASGEINLYGPTEATVDVSY
  Nearest Stachelhaus code(s):
    Ser DVWHFSLVDK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (4336..4743): Glu
nrpys: Glu

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    glu,gln (Glu, Gln)
  Single AA prediction:
    gln (Gln)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LGLAFDASVKQADGLIGGETNVYGPTETCVDASV
  Nearest Stachelhaus code(s):
    Glu DAKDLGVVDK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS11990: fatty_acid - Asn
Search NORINE for peptide: strict or relaxed
CAL_domain (36..478): fatty_acid
minowa: fatty_acid

Prediction, score:
  fatty_acid: 621.2
  NH2: 18.0
  shikimic_acid: 0.0
  Acetyl-CoA: 0.0
  AHBA: 0.0

AMP-binding (2956..3351): Asn
nrpys: Asn

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    asp,asn (Asp, Asn)
  Single AA prediction:
    asn (Asn)

Stachelhaus prediction details:
  Stachelhaus sequence:
    YWASFDLTVTSTKLIVGGEFNEYGPTEAVVGCMI
  Nearest Stachelhaus code(s):
    Asn DLTKIGEVGK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS11995: mal
PKS_AT (6..290): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 62.5%
  inactive: 54.2%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 79.7
  inactive: 29.9
  Methoxymalonyl-CoA: 21.9
  Methylmalonyl-CoA: 13.0
  Propionyl-CoA: 11.7
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Isobutyryl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0
  2-Methylbutyryl-CoA: 0.0

D9777_RS12090: X
AMP-binding (12..445): X
nrpys: (unknown)

SVM prediction details:
  Predicted physicochemical class:
    N/A
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    NNIVF-GCVLGAHGIMAGSTIAYGQTEASPVVTQ
  Nearest Stachelhaus code(s):
    Z-ahmohOrn FGLHIASTCK (56% 8Å match)
    Ile DGLFIGIPVK (32% 8Å match)
  Stachelhaus code match:
    60% (weak)

D9777_RS12110: Ile
Search NORINE for peptide: strict or relaxed
AMP-binding (473..866): Ile
nrpys: Ile

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    ile (Ile)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LNSGFDAVTFEGFLYVGGEYNIYGPTENTTFSTF
  Nearest Stachelhaus code(s):
    Ile DAFFYGITFK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS12115: Pro - Gln - Tyr
Search NORINE for peptide: strict or relaxed
AMP-binding (469..866): Pro
nrpys: Pro

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Cyclic aliphatic chain (polar NH2 group) (Pro, Hpr)
  Small clusters prediction:
    pro (Pro)
  Single AA prediction:
    pro (Pro)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LHQAFDVCYQESFFITAGEHNHYGPSETHVVSTY
  Nearest Stachelhaus code(s):
    Pro DVQFIAHVVK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1500..1901): Gln
nrpys: Gln

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    glu,gln (Glu, Gln)
  Single AA prediction:
    glu (Glu)

Stachelhaus prediction details:
  Stachelhaus sequence:
    FSLTFDASIWEWHFFAGGETNSYGPTEATVEAAY
  Nearest Stachelhaus code(s):
    Gln DAWHFGSVEK (100% 8Å match)
    Glu DAWHFGSVEK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (2532..2924): Tyr
nrpys: Tyr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
  Large clusters prediction:
    Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
  Small clusters prediction:
    Polar aromatic ring (Tyr, bOH-Tyr)
  Single AA prediction:
    tyr (Tyr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TWRFFDGFVTSTIITLAGEANEYGPTENSVATTA
  Nearest Stachelhaus code(s):
    Tyr DGTITAEVAK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS12120: Glu - X
Search NORINE for peptide: strict or relaxed
AMP-binding (468..873): Glu
nrpys: Glu

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    glu,gln (Glu, Gln)
  Single AA prediction:
    glu (Glu)

Stachelhaus prediction details:
  Stachelhaus sequence:
    FGMSFDASIWQWHFFAGGEIHGYGPTEATVDAAF
  Nearest Stachelhaus code(s):
    Glu DAWHFGGVDK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1505..1898): X
nrpys: Ala, Val

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
  Single AA prediction:
    val (Val)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LNSSFDVTTFEGWLIIGGEWNGYGPTENTTFSTC
  Nearest Stachelhaus code(s):
    Ala or Val DVFWIGGTFK (97% 8Å match)
    Val DVFWIGGTFK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS12125: Tyr - Thr
Search NORINE for peptide: strict or relaxed
AMP-binding (474..867): Tyr
nrpys: Tyr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
  Large clusters prediction:
    Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
  Small clusters prediction:
    Polar aromatic ring (Tyr, bOH-Tyr)
  Single AA prediction:
    tyr (Tyr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TWRFFDGSLTSTLITFAGELNEYGPTENSVATTI
  Nearest Stachelhaus code(s):
    Tyr DGTLTAEVAK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1509..1903): Thr
nrpys: Thr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    thr (Thr)
  Single AA prediction:
    thr (Thr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LHKHFDFSVWEGNQIFGGEVNMYGITETTVHVTC
  Nearest Stachelhaus code(s):
    Thr DFWNIGMVHK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArgR | Regulator of arginine biosynthesis genes
CcpA | Catabolite control protein A
GnfM | Regulator of nitrogen-fixation genes
LexA variant 3 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes
RpoN | Regulator of nitrogen assimilation and virulence
RutR | Regulator of the pyrimidine and purine metabolism
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_CP033054.1 - Region 8 - terpene
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: 2,477,978 - 2,499,861 nt. (total: 21,884 nt) Show pHMM detection rules used
terpene: (PT_phytoene_like or phytoene_synt or Lycopene_cycl or Lycopene_cycl_fung or T1TS or T1TS_KS or T2TS or TS_UbiA or TS_Pyr4)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
D9777_RS12430: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

Hydrolases: hydrolase
D9777_RS12455: metallo-beta-lactamase family protein

smcogs
  SMCOG1170: metallo-beta-lactamase family protein

Similar gene clusters
Shows areas 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 | terpene | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002173.2 |  | 0.46 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0001535.3 |  | 0.42 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0000313.4 |  | 0.36 | NRPS | beauvericin | Beauveria bassiana
BGC0002255.3 |  | 0.33 | PKS | lijiquinone | Ascomycota sp. F53
BGC0000663.5 |  | 0.30 | terpene | hopene | Streptomyces coelicolor A3(2)
BGC0000686.3 |  | 0.30 | terpene | helvolic acid | Aspergillus fumigatus Af293
BGC0001575.4 |  | 0.29 | NRPS | PZN5, PZN6, PZN7, PZN9, PZN10, PZN11 | Ruminococcus sp. 5_1_39BFAA
BGC0001338.4 |  | 0.28 | PKS | citrinin | Monascus ruber
BGC0000154.4 |  | 0.28 | PKS | stipitatic acid | Talaromyces stipitatus ATCC 10500
BGC0001739.3 |  | 0.28 | other (other) | phosphonoacetic Acid | Streptomyces sp. NRRL F-525

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002173.2 |  | 0.46 | saccharide, terpene | fumihopaside A, compound 3, 21-β-H-hopane-3beta, 22-diol | Aspergillus fumigatus A1163
BGC0001535.3 |  | 0.42 | other (other) | branched-chain fatty acids | Streptomyces filamentosus
BGC0000313.4 |  | 0.36 | NRPS | beauvericin | Beauveria bassiana
BGC0002255.3 |  | 0.33 | PKS | lijiquinone | Ascomycota sp. F53
BGC0000663.5 |  | 0.30 | terpene | hopene | Streptomyces coelicolor A3(2)
BGC0000686.3 |  | 0.30 | terpene | helvolic acid | Aspergillus fumigatus Af293
BGC0001575.4 |  | 0.29 | NRPS | PZN5, PZN6, PZN7, PZN9, PZN10, PZN11 | Ruminococcus sp. 5_1_39BFAA
BGC0001338.4 |  | 0.28 | PKS | citrinin | Monascus ruber
BGC0000154.4 |  | 0.28 | PKS | stipitatic acid | Talaromyces stipitatus ATCC 10500
BGC0001739.3 |  | 0.28 | other (other) | phosphonoacetic Acid | Streptomyces sp. NRRL F-525

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
triterpene | hopanoid |  | C30 | hopanoid skeleton | unknown
triterpene | polypodane |  | C30 | polypodane skeleton | unknown

Genes with terpene domains:
D9777_RS12435: T2TS
Domain 1 (6 - 625): Type 2 terpene synthase
Subtype: Squalene substrate

Reactions:
  squalene → hopanoid
  squalene → polypodane

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 26.30 out of 27.78
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.53 out of 26.06
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.86 out of 27.78
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.70 out of 28.19
Confidence: medium
Additional weak hits (5):
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.62 out of 21.55
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.10 out of 29.25
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.54 out of 26.06
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 25.14 out of 39.62
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.63 out of 25.75
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.
No acronyms to display
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_CP033054.1 - Region 9 - T3PKS
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: 2,580,831 - 2,621,931 nt. (total: 41,101 nt) Show pHMM detection rules used
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: acetyltransferase methyltransferase
D9777_RS13150: isoprenylcysteine carboxyl methyltransferase

smcogs
  SMCOG1150: isoprenylcysteine carboxyl methyltransferase

D9777_RS13160: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: hydrolase
D9777_RS13185: isochorismatase

smcogs
  SMCOG1027: isochorismatase

Ligases: synthase
D9777_RS13155: chalcone and stilbene synthase domain protein

smcogs
  SMCOG1024: chalcone and stilbene synthase domain protein

Similar gene clusters
Shows areas 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 | T3PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000282.3 |  | 0.55 | PKS | 2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001831.3 |  | 0.54 | PKS | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0002127.3 |  | 0.50 | PKS | flaviolin, 1,3,6,8-tetrahydroxynaphthalene | Streptomyces coelicolor A3(2)
BGC0000902.4 |  | 0.48 | PKS | flaviolin | Saccharopolyspora erythraea NRRL 2338
BGC0001475.4 |  | 0.43 | terpene | aspterric acid | Aspergillus terreus NIH2624
BGC0000285.5 |  | 0.42 | PKS, saccharide | flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin | Saccharopolyspora erythraea
BGC0001289.5 |  | 0.35 | ribosomal | penisin | Paenibacillus ehimensis
BGC0001647.3 |  | 0.34 | PKS | lagunapyrone A, lagunapyrone B, lagunapyrone C | Streptomyces sp. MP131-18
BGC0002254.3 |  | 0.33 | PKS | notoamide F, (+)-semivioxanthin, waikikiamide B, waikikiamide C, notoamide A, waikikiamide A | Aspergillus sp. FM242
BGC0001964.2 |  | 0.33 | PKS | alkylpyrone-407, alkylpyrone-393 | Cystobacterineae bacterium

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000282.3 |  | 0.55 | PKS | 2-methoxy-5-methyl-6-(13-methyltetradecyl)-1,4-benzoquinone, 2-methoxy-5-methyl-6-(13-methyltetradecyl)phenol | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001831.3 |  | 0.54 | PKS | alkylpyrone-407, alkylpyrone-393 | Myxococcus xanthus DK 1622
BGC0002127.3 |  | 0.50 | PKS | flaviolin, 1,3,6,8-tetrahydroxynaphthalene | Streptomyces coelicolor A3(2)
BGC0000902.4 |  | 0.48 | PKS | flaviolin | Saccharopolyspora erythraea NRRL 2338
BGC0001475.4 |  | 0.43 | terpene | aspterric acid | Aspergillus terreus NIH2624
BGC0000285.5 |  | 0.42 | PKS, saccharide | flaviolin, flaviolin rhamnoside, 3,3'-diflaviolin | Saccharopolyspora erythraea
BGC0001289.5 |  | 0.35 | ribosomal | penisin | Paenibacillus ehimensis
BGC0001647.3 |  | 0.34 | PKS | lagunapyrone A, lagunapyrone B, lagunapyrone C | Streptomyces sp. MP131-18
BGC0002254.3 |  | 0.33 | PKS | notoamide F, (+)-semivioxanthin, waikikiamide B, waikikiamide C, notoamide A, waikikiamide A | Aspergillus sp. FM242
BGC0001964.2 |  | 0.33 | PKS | alkylpyrone-407, alkylpyrone-393 | Cystobacterineae bacterium

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.98 out of 20.97
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 22.73 out of 29.25
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 27.26 out of 29.38
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.75 out of 18.57
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.84 out of 29.38
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.26 out of 27.78
Confidence: medium
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.67 out of 21.55
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.06 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.39 out of 27.78
Confidence: medium
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 20.80 out of 26.33
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.60 out of 26.06
Confidence: medium
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.16 out of 26.33
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 25.16 out of 28.19
Confidence: strong
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 24.73 out of 28.19
Confidence: strong
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.10 out of 32.93
Confidence: medium
Additional weak hits (15):
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.42 out of 28.14
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 23.07 out of 30.22
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.45 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.74 out of 26.06
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.45 out of 29.25
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.23 out of 29.38
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.58 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 26.01 out of 32.74
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.56 out of 26.06
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.65 out of 30.25
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 22.59 out of 30.97
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.18 out of 25.75
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.96 out of 29.65
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.01 out of 24.78
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.60 out of 26.06
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
ArcA | Repressor of carbon oxidation
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1 | Ferric Uptake Regulator
LexA variant 3 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes
SypG | Regulator of biofilm formation and host colonization
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_CP033054.1 - Region 10 - transAT-PKS
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: 2,736,524 - 2,842,700 nt. (total: 106,177 nt) Show pHMM detection rules used
transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase oxygenase
D9777_RS13955: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

D9777_RS14035: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS14060: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

D9777_RS14065: alcohol dehydrogenase

smcogs
  SMCOG1040: alcohol dehydrogenase

D9777_RS14075: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS14080: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS14095: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS14100: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS14145: NADH:flavin oxidoreductase/NADH oxidase

smcogs
  SMCOG1217: NADH:flavin oxidoreductase/NADH oxidase

D9777_RS14170: 3-hydroxyisobutyrate dehydrogenase

smcogs
  SMCOG1100: 3-hydroxyisobutyrate dehydrogenase

Transferases: acylase transferase
D9777_RS14120: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

D9777_RS14195: acetyl-CoA carboxylase, carboxyl transferase,

smcogs
  SMCOG1059: acetyl-CoA carboxylase, carboxyl transferase,

Hydrolases: deacetylase hydrolase
D9777_RS14040: metallo-beta-lactamase family protein

smcogs
  SMCOG1170: metallo-beta-lactamase family protein

D9777_RS14190: acetylornithine deacetylase

smcogs
  SMCOG1247: acetylornithine deacetylase

Lyases: hydratase
D9777_RS14050: enoyl-CoA hydratase

smcogs
  SMCOG1023: enoyl-CoA hydratase

Ligases: ligase synthase
D9777_RS14055: hydroxymethylglutaryl-CoA synthase

smcogs
  SMCOG1043: hydroxymethylglutaryl-CoA synthase

D9777_RS14070: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

D9777_RS14085: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

D9777_RS14105: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas 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 | transAT-PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000176.5 |  | 0.92 | PKS | difficidin | Bacillus velezensis FZB42
BGC0001160.5 |  | 0.64 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.64 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001254.3 |  | 0.61 | PKS | ACT-Toxin II | Alternaria alternata
BGC0000181.5 |  | 0.61 | PKS | macrolactin H | Bacillus velezensis FZB42
BGC0000174.5 |  | 0.60 | PKS | bryostatin | Candidatus Endobugula sertula
BGC0001383.3 |  | 0.58 | PKS | macrolactin H, macrolactin B, macrolactin 1c, macrolactin E | Jeotgalibacillus marinus
BGC0002056.3 |  | 0.58 | NRPS, PKS | peloruside A | sponge metagenome
BGC0001795.3 |  | 0.54 | PKS | swinholide A | Nostoc sp. UHCC 0450
BGC0000205.3 |  | 0.52 | PKS | bryostatin | Candidatus Endobugula sertula

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000176.5 |  | 0.92 | PKS | difficidin | Bacillus velezensis FZB42
BGC0001160.5 |  | 0.64 | PKS | 1-nonadecene, (14Z)-1,14-nonadecadiene | Synechococcus sp. PCC 7002
BGC0001164.3 |  | 0.64 | PKS | 1-heptadecene | Cyanothece sp. PCC 7822
BGC0001254.3 |  | 0.61 | PKS | ACT-Toxin II | Alternaria alternata
BGC0000181.5 |  | 0.61 | PKS | macrolactin H | Bacillus velezensis FZB42
BGC0000174.5 |  | 0.60 | PKS | bryostatin | Candidatus Endobugula sertula
BGC0001383.3 |  | 0.58 | PKS | macrolactin H, macrolactin B, macrolactin 1c, macrolactin E | Jeotgalibacillus marinus
BGC0002056.3 |  | 0.58 | NRPS, PKS | peloruside A | sponge metagenome
BGC0001795.3 |  | 0.54 | PKS | swinholide A | Nostoc sp. UHCC 0450
BGC0000205.3 |  | 0.52 | PKS | bryostatin | Candidatus Endobugula sertula

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 17.22 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.51 out of 23.79
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.89 out of 27.78
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.40 out of 27.78
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 22.19 out of 27.78
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 22.84 out of 24.78
Confidence: strong
CatR
Description: H2O2-responsive repressor
Species: Streptomyces coelicolor
Score: 20.30 out of 25.31
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.92 out of 27.78
Confidence: medium
Additional weak hits (10):
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 26.71 out of 30.97
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 22.13 out of 30.97
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.26 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.34 out of 26.06
Confidence: weak
MatP
Description: Cell cycle regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.13 out of 25.75
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 21.46 out of 30.97
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.61 out of 30.25
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 22.89 out of 32.93
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.45 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.08 out of 26.06
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
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 12, location 2736523 - 2842700:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:
  (Me-ccmal - ccmal - mal) + (ohmal - mal) + (mal) + (ccmal - ccmal - ohmal - ccmal) + (ohmal - mal) + (Me-ccmal) + (mal)
Non-colinear ordering:
  D9777_RS14095 + D9777_RS14090 + D9777_RS14085 + D9777_RS14080 + D9777_RS14075 + D9777_RS14070 + D9777_RS14065

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS14105: X
AMP-binding (15..363): X
nrpys: (unknown)

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    ALLLHIGGINTAPATYGTEKQTYGLTELGIFSTK
  Nearest Stachelhaus code(s):
    2,3-dohHda IGNPTGTIMK (74% 8Å match)
  Stachelhaus code match:
    90% (moderate)

D9777_RS14120: mal
PKS_AT (4..281): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 83.3%
  inactive: 62.5%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 87.7
  inactive: 30.9
  Methoxymalonyl-CoA: 29.3
  Methylmalonyl-CoA: 21.7
  Propionyl-CoA: 16.5
  2-Methylbutyryl-CoA: 15.4
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Isobutyryl-CoA: 0.0
  Ethylmalonyl-CoA: 0.0
  CHC-CoA: 0.0
  Benzoyl-CoA: 0.0
  Acetyl-CoA: 0.0
  3-Methylbutyryl-CoA: 0.0

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CatR | H2O2-responsive repressor
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
IolR | Regulator of the inositol catabolism
LexA variant 2 | Repressor of DNA damage response
ToxT | Regulator of MSHA biosynthesis

NZ_CP033054.1 - Region 11 - terpene-precursor
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: 2,866,022 - 2,886,912 nt. (total: 20,891 nt) Show pHMM detection rules used
terpene-precursor: (PT_FPPS_like and not PT_HPP)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Transferases: carboxylase
D9777_RS14420: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

Ligases: synthase synthetase
D9777_RS14385: 1-deoxy-D-xylulose-5-phosphate synthase

smcogs
  SMCOG1110: 1-deoxy-D-xylulose-5-phosphate synthase

D9777_RS14390: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Similar gene clusters
Shows areas 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 | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002284.3 |  | 0.38 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000642.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000638.3 |  | 0.37 | terpene | carotenoid | Pantoea ananatis
BGC0000640.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC404

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002398.2 |  | 0.39 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0002284.3 |  | 0.38 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000639.3 |  | 0.38 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000642.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000638.3 |  | 0.37 | terpene | carotenoid | Pantoea ananatis
BGC0000640.3 |  | 0.37 | terpene | carotenoid | Enterobacteriaceae bacterium DC404

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
sesquiterpene precursor |  | FPP | C15 | acyclic | PP

Genes with terpene domains:
D9777_RS14390: PT_FPPS_like
Domain 1 (33 - 296): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:
  DMAPP, IPP → FPP

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 23.81 out of 29.25
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.14 out of 27.78
Confidence: medium
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 23.59 out of 30.25
Confidence: medium
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

Acronym | Full name
--- | ---
DMAPP | Dimethylallyl diphosphate
FPP | Farnesyl diphosphate
IPP | Isopentenyl diphosphate
PP | Diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
ColR | Phenol-responsive regulator
SypG | Regulator of biofilm formation and host colonization

NZ_CP033054.1 - Region 12 - NRP-metallophore,NRPS,RiPP-like,terpene-precursor
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: 3,466,434 - 3,531,873 nt. (total: 65,440 nt) Show pHMM detection rules used
terpene-precursor: (PT_FPPS_like and not PT_HPP)
NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL)))
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)
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 or (YcaO or TIGR03604))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Terpene
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase reductase
D9777_RS17680: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS17755: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS17805: pyridine nucleotide-disulfide oxidoreductase

smcogs
  SMCOG1175: pyridine nucleotide-disulfide oxidoreductase

D9777_RS17815: alkyl hydroperoxide reductase subunit

smcogs
  SMCOG1176: alkyl hydroperoxide reductase subunit

D9777_RS17860: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acetyltransferase
D9777_RS17855: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

Hydrolases: esterase hydrolase
D9777_RS17595: thioesterase superfamily protein

smcogs
  SMCOG1144: thioesterase superfamily protein

D9777_RS17645: isochorismatase

smcogs
  SMCOG1027: isochorismatase

D9777_RS17740: isochorismatase

smcogs
  SMCOG1027: isochorismatase

Isomerases: isomerase
D9777_RS17750: isochorismate synthase

smcogs
  SMCOG1018: isochorismate synthase

Ligases: ligase synthetase
D9777_RS17615: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

D9777_RS17735: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

D9777_RS17745: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas 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 | terpene-precursor | NRP-metallophore | NRPS | RiPP-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | --- | ---
BGC0000616.4 |  |  |  |  | 2.43 | ribosomal | amylocyclicin | Bacillus velezensis FZB42
BGC0001185.5 |  |  |  |  | 1.59 | NRPS | bacillibactin | Bacillus velezensis FZB42
BGC0000309.5 |  |  |  |  | 1.07 | NRPS | bacillibactin | Bacillus subtilis subsp. subtilis str. 168
BGC0000401.5 |  |  |  |  | 1.04 | NRPS | paenibactin | Paenibacillus elgii B69
BGC0002075.3 |  |  |  |  | 0.87 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0000343.5 |  |  |  |  | 0.86 | NRPS | enterobactin | Pseudomonas sp. J465
BGC0001132.4 |  |  |  |  | 0.77 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  |  |  |  | 0.76 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001128.4 |  |  |  |  | 0.75 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  |  |  |  | 0.74 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000616.4 |  | 0.95 | ribosomal | amylocyclicin | Bacillus velezensis FZB42
BGC0001185.5 |  | 0.93 | NRPS | bacillibactin | Bacillus velezensis FZB42
BGC0000309.5 |  | 0.81 | NRPS | bacillibactin | Bacillus subtilis subsp. subtilis str. 168
BGC0000401.5 |  | 0.80 | NRPS | paenibactin | Paenibacillus elgii B69
BGC0002075.3 |  | 0.74 | NRPS | pyreudione A, pyreudione B, pyreudione C, pyreudione D, pyreudione E | Pseudomonas fluorescens
BGC0000343.5 |  | 0.74 | NRPS | enterobactin | Pseudomonas sp. J465
BGC0001132.4 |  | 0.71 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001833.4 |  | 0.70 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001128.4 |  | 0.70 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Detailed terpene predictions
Detailed information for terpene domains. Shows possible products of a terpene cluster and lists the subtype and expected reactions for each terpene-related domain.
Product predictions:

Class | Subclass | Product name | Chain length | Initial cyclisations | Functional groups
--- | --- | --- | --- | --- | ---
sesquiterpene precursor |  | FPP | C15 | acyclic | PP
diterpene precursor |  | GGPP | C20 | acyclic | PP
sesterterpene precursor |  | GFPP | C25 | acyclic | PP
triterpene precursor |  | HPP | C30 | acyclic | PP

Genes with terpene domains:
D9777_RS17615: PT_FPPS_like
Domain 1 (62 - 308): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: unknown

Reactions:
  IPP, DMAPP → FPP
  IPP, DMAPP → GGPP
  IPP, DMAPP → GFPP
  IPP, DMAPP → HPP

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 29.38 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.61 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 27.15 out of 29.38
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.49 out of 27.78
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.87 out of 27.78
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.49 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.91 out of 29.38
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.52 out of 27.78
Confidence: medium
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.23 out of 21.55
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.11 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 20.89 out of 27.78
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 24.73 out of 28.19
Confidence: strong
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.18 out of 28.19
Confidence: medium
Additional weak hits (18):
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.88 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.45 out of 26.06
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 22.44 out of 31.73
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 20.84 out of 29.25
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.61 out of 32.74
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 21.80 out of 28.14
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.12 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.52 out of 32.74
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 22.31 out of 29.38
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.18 out of 26.06
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.44 out of 26.06
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.15 out of 26.06
Confidence: weak
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.10 out of 29.25
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.86 out of 26.06
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 23.99 out of 33.14
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 21.63 out of 30.12
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
Terpene
TFBS Finder
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 14, location 3466433 - 3531873:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Gly - Thr)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 16, location 3480078 - 3531815:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Gly - Thr)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS17735: Gly - Thr
Search NORINE for peptide: strict or relaxed
AMP-binding (456..855): Gly
nrpys: Gly

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
  Single AA prediction:
    gly (Gly)

Stachelhaus prediction details:
  Stachelhaus sequence:
    FSMTFDISGLELQALVGGETNLYGPTETTIWSAA
  Nearest Stachelhaus code(s):
    Gly DILQLGLIWK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1513..1929): Thr
nrpys: Thr

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Aliphatic chain or phenyl group with -OH (Ser, Thr, Dhpg, Hpg)
  Small clusters prediction:
    thr (Thr)
  Single AA prediction:
    thr (Thr)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LSTHFDFSVWEGNQIFGGEVNMYGITETTVHVSY
  Nearest Stachelhaus code(s):
    Thr DFWNIGMVHK (100% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS17745: diOH-Bz
Search NORINE for peptide: strict or relaxed
AMP-binding (31..435): diOH-Bz
nrpys: diOH-Bz

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
  Large clusters prediction:
    Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
  Small clusters prediction:
    Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
  Single AA prediction:
    dhb (diOH-Bz)

Stachelhaus prediction details:
  Stachelhaus sequence:
    SISLYPLSSPGGALQVGGAQQVFGMAEGLVNYTR
  Nearest Stachelhaus code(s):
    diOH-Bz PLPAQGVVNK (100% 8Å match)
    diOH-Bz or Sal PLPAQGVVNK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

Link to PARAS substrate predictor
Glossary
Glossary showing acronyms and their full names.

Acronym | Full name
--- | ---
DMAPP | Dimethylallyl diphosphate
FPP | Farnesyl diphosphate
GFPP | Geranylfarnesyl diphosphate
GGPP | Geranylgeranyl diphosphate
HPP | Hexaprenyl diphosphate
IPP | Isopentenyl diphosphate
PP | Diphosphate

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArcA | Repressor of carbon oxidation
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1 | Ferric Uptake Regulator
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis
ZuR variant 1 | Zinc-responsive repressor

NZ_CP033054.1 - Region 13 - 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: 3,701,287 - 3,727,664 nt. (total: 26,378 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
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Lyases: cyclase
D9777_RS18835: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

D9777_RS18845: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

Similar gene clusters
Shows areas 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
--- | --- | --- | --- | --- | ---
BGC0000504.5 |  | 0.57 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000517.4 |  | 0.57 | ribosomal | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000554.4 |  | 0.56 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000623.3 |  | 0.54 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0000525.5 |  | 0.54 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0001229.4 |  | 0.53 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0001210.5 |  | 0.52 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0001311.5 |  | 0.52 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0000500.5 |  | 0.51 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0001391.3 |  | 0.50 | ribosomal | thusin | Bacillus thuringiensis serovar rongseni

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000504.5 |  | 0.57 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000517.4 |  | 0.57 | ribosomal | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000554.4 |  | 0.56 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000623.3 |  | 0.54 | ribosomal | plantaricin W α, plantaricin W β | Lactobacillus plantarum
BGC0000525.5 |  | 0.54 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0001229.4 |  | 0.53 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0001210.5 |  | 0.52 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0001311.5 |  | 0.52 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0000500.5 |  | 0.51 | ribosomal | carnolysin A1, carnolysin A2 | Carnobacterium maltaromaticum
BGC0001391.3 |  | 0.50 | ribosomal | thusin | Bacillus thuringiensis serovar rongseni

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.

#### Lanthipeptide(s) for D9777_RS18835

D9777_RS18840
Leader:
MKKDMVKKVSGFIEEDELISLANGDNATGG
Core:
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
Core with dehydrations:
A Dhb P A Dhb V V L Dhb A Dhb I G L Dhb G Dhb Dhb F Dhb V Dhb L Dha A A Dha Cys P Dhb Dha A Cys Dhb K Q Cys N K

#### antiSMASH-DB 4.0 matches for D9777_RS18840

100.0%
NZ_CP033054.1 and 11 others:
NZ_CP033054.1 Lanthipeptides: D9777_RS18840_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18605_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18605_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15935_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15935_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17885_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17885_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12560_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12560_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01365_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01365_lanthipeptide
Lanthipeptides: D9777_RS18840_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
97.4%
NZ_CP017953.1 and 15 others:
NZ_CP017953.1 Lanthipeptides: BAMY_RS16390_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06470_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06470_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15890_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15890_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05695_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05695_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16180_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16180_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16150_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16150_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11805_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11805_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06815_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06815_lanthipeptide
Lanthipeptides: BAMY_RS16390_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
A T P T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
1
A T P-T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
38
76.9%
NZ_JALAUA010000003.1 and 1 other:
NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04870_lanthipeptide
Lanthipeptides: MOD32_RS04870_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
T P T +L T A L T G T T F T V T L S A A S C P T S A C T C N K
1
G T P V T A I L T A---L T G T T F T V T L S A A S C P T S A C T N L C N K
36
with 112 more sequence matches
Only the first 10 are displayed here.
74.4%
NZ_CP047645.1 and 5 others:
NZ_CP047645.1 Lanthipeptides: GSN02_RS17435_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18550_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18550_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03735_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03735_lanthipeptide
Lanthipeptides: GSN02_RS17435_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
T P T ++T A L T G T T F T V T L S A A S C P T S A C T C N K
1
G T P V T A I I T A---L T G T T F T V T L S A A S C P T S A C T N L C N K
36
53.8%
NZ_CKMQ01000043.1 and 8 others:
NZ_CKMQ01000043.1 Lanthipeptides: AE832_RS09950_lanthipeptide NZ_CKMR01000002.1 Lanthipeptides: AD782_RS02065_lanthipeptide NZ_CKMR01000002.1 Lanthipeptides: AD782_RS02065_lanthipeptide NZ_FIXU01000003.1 Lanthipeptides: A1M11_RS01730_lanthipeptide NZ_FIXU01000003.1 Lanthipeptides: A1M11_RS01730_lanthipeptide NZ_LR216041.1 Lanthipeptides: E0F00_RS05470_lanthipeptide NZ_LR216046.1 Lanthipeptides: E0E82_RS05985_lanthipeptide NZ_LR216046.1 Lanthipeptides: E0E82_RS05985_lanthipeptide
Lanthipeptides: AE832_RS09950_lanthipeptide
7
V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
++ A T I G T F T V T L+A +C P T S C T K C N K
5
I I P A T I S F V G V T F T V T L N A G A C P T S G C T K S C N K
37
53.8%
NZ_PNGD01000001.1 and 1 other:
NZ_PNGD01000001.1 Lanthipeptides: CJ239_RS00165_lanthipeptide
Lanthipeptides: CJ239_RS00165_lanthipeptide
7
V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
++ A T I G T F T V T L+A +C P T S C T K C N K
5
I I A A T I S F A G V T F T V T L N A G A C P T S G C T K S C N K
37
46.2%
NZ_BLIS01000009.1 and 1 other:
NZ_BLIS01000009.1 Lanthipeptides: GVO03_RS04825_lanthipeptide
Lanthipeptides: GVO03_RS04825_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
A+P A T T I G T +S A +C P T S A C T+ C
4
A S P A T P-Y T P A I G K G V I A V T A F V S A N T C P T S A C T R A C
39
46.2%
NZ_CP009288.1 and 3 others:
NZ_CP009288.1 Lanthipeptides: PDUR_RS29295_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01575_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01575_lanthipeptide
Lanthipeptides: PDUR_RS29295_lanthipeptide
3
P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
P T +L T T T T V T+S A+ C P T+ C T Q C
6
P E T T I L T-T S S W T C I T A G V T V S A S L C P T T K C T S Q C
39
46.2%
NZ_PCGR01000003.1 and 1 other:
NZ_PCGR01000003.1 Lanthipeptides: CQS04_RS09625_lanthipeptide
Lanthipeptides: CQS04_RS09625_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
A T P T+V+T A G +S A S C P T+A C T+ C
1
A T P-T I V I T A I T G Y--------I S A N S C P T T A C T R A C
28
46.2%
NZ_QRWZ01000002.1 and 3 others:
NZ_QRWZ01000002.1 Lanthipeptides: DWX18_RS02625_lanthipeptide NZ_SPGD01000003.1 Lanthipeptides: FGQ50_RS01930_lanthipeptide NZ_SPGD01000003.1 Lanthipeptides: FGQ50_RS01930_lanthipeptide
Lanthipeptides: DWX18_RS02625_lanthipeptide
2
T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
T P A T T I G T +S A +C P T S A C T+ C
2
T P A T P-Y T P A I G K G V I A V T A F V S A N T C P T S A C T R A C
36
43.6%
NZ_WHOM01000078.1 and 1 other:
NZ_WHOM01000078.1 Lanthipeptides: GCN81_RS29290_lanthipeptide
Lanthipeptides: GCN81_RS29290_lanthipeptide
8
L T A T I G L T G T T F T V T L S A A---S C P T S A C T K Q C
37
+T T I L T V S A A C P T S C T K+C
8
I T P T I-L P A T G V I V G A S A A L Q G G C P T S G C T K R C
39
41.0%
NZ_CP102975.1 and 1 other:
NZ_FMOE01000002.1 Lanthipeptides: BJT27_RS07810_lanthipeptide
Lanthipeptides: NW953_RS00175_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
A T P A V+ T V S A C P T A C+ +C K
1
A T P A V V I---------T G I L V A A S T A Q C P T L A C S S R C G K
30
41.0%
NZ_JAENHN010000066.1 and 1 other:
NZ_JAENHN010000066.1 Lanthipeptides: JHL18_RS24400_lanthipeptide
Lanthipeptides: JHL18_RS24400_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N
38
T P V+ A T+G L T T A C T A C T C+
2
G T P C A V I--A T V G L T I K V A T----A V V C E T G A C T G Y C H
33

#### MIBiG 4.0 matches for D9777_RS18840

25.6%
BGC0001229.4 (SBI_06989):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
21
V T L S A A S C P T S A C T K Q C
37
V +S A A C P T+ C T +C
21
V G V S A A F C P T T K C T S R C
37
15.4%
BGC0002110.3 (QKV49894.1):
Lanthipeptide: birimositide
28
C P T S A C T K Q C
37
C P T+ C T +C
17
C P T T K C T S K C
26
12.8%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
15
T G T T F T V T L S A A S C P T S
31
T G + A+C S
13
T G A L M G C N M K T A T C H C S
29
D9777_RS18850
Leader:
MKKTKILKTPELKVTKDLNLIDPCGDVLEEIKEHEVSGA
Core:
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
Core with dehydrations:
F N Dhb W N Dhb Dhb Dhb Dhb Dha L G G I L V Dha E V L G N K G K V Cys Dhb G Dhb K E Cys Q G Dhb Cys

#### antiSMASH-DB 4.0 matches for D9777_RS18850

100.0%
NZ_CP017953.1 and 27 others:
NZ_CP017953.1 Lanthipeptides: BAMY_RS16400_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06480_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06480_lanthipeptide NZ_CP033054.1 Lanthipeptides: D9777_RS18850_lanthipeptide NZ_CP033054.1 Lanthipeptides: D9777_RS18850_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15900_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15900_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18615_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18615_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05705_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05705_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15945_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15945_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16190_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16190_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16160_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16160_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17895_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17895_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11815_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11815_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12550_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12550_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01375_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01375_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06825_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06825_lanthipeptide
Lanthipeptides: BAMY_RS16400_lanthipeptide
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
91.9%
NZ_CP047645.1 and 7 others:
NZ_CP047645.1 Lanthipeptides: GSN02_RS17445_lanthipeptide NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04860_lanthipeptide NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04860_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18560_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18560_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03725_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03725_lanthipeptide
Lanthipeptides: GSN02_RS17445_lanthipeptide
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
F N T W N T T T T S+G I L V S E V G N K G K V C T G T K E C Q G T C
1
F N T W N T T T T S V G T I L V S E V F G N K G K V C T G T K E C Q G T C
37
60.5%
NZ_CM000756.1 and 7 others:
NZ_CM000756.1 Lanthipeptides: BTHUR0011_RS34475_lanthipeptide NZ_CP031749.1 Lanthipeptides: DPQ26_RS30450_lanthipeptide NZ_CP031749.1 Lanthipeptides: DPQ26_RS30450_lanthipeptide NZ_CP036071.1 Lanthipeptides: EXW41_RS29770_lanthipeptide NZ_CP036071.1 Lanthipeptides: EXW41_RS29770_lanthipeptide NZ_WBPC01000036.1 Lanthipeptides: F8159_RS30260_lanthipeptide NZ_WBPC01000036.1 Lanthipeptides: F8159_RS30260_lanthipeptide
Lanthipeptides: BTHUR0011_RS34475_lanthipeptide
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T W N T T T S I++S E G N K G K V C T T E C C
1
I N T W N T T A T S T S-I I I S E T F G N K G K V C T Y T V E C V N N C
36
with 110 more sequence matches
Only the first 10 are displayed here.
56.8%
NZ_JAGKQT010000007.1 and 3 others:
NZ_JAGKQT010000007.1 Lanthipeptides: J2M30_RS09860_lanthipeptide NZ_LVYL01000010.1 Lanthipeptides: A3863_RS05855_lanthipeptide NZ_LVYL01000010.1 Lanthipeptides: A3863_RS05855_lanthipeptide
Lanthipeptides: J2M30_RS09860_lanthipeptide
2
N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T W N T +T S I V S +G N G K V C T T E C C
1
N T W N T I S T S T C-I A V S H F V G N D G K V C T Y T V E C V N N C
35
54.1%
NZ_CP009288.1 and 3 others:
NZ_CP009288.1 Lanthipeptides: PDUR_RS25150_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01580_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01580_lanthipeptide
Lanthipeptides: PDUR_RS25150_lanthipeptide
5
N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T T T S I L+S L G N G V C T T K E C +C
4
N T L T T S-T S I L I S M T L G N N G W V C T A T K E C M P S C
35
51.3%
NZ_JALGRP010000007.1 and 1 other:
NZ_JALGRP010000007.1 Lanthipeptides: MT347_RS12955_lanthipeptide
Lanthipeptides: MT347_RS12955_lanthipeptide
4
W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
W T T T S L V S V G N G+V C T T E C Q C
5
W T T T I T S L T C Y G V S W V A G N N G Q V C T A T V E C Q N N C
38
48.6%
NZ_CP009280.1 and 1 other:
NZ_CP009280.1 Lanthipeptides: P40081_RS01820_lanthipeptide
Lanthipeptides: P40081_RS01820_lanthipeptide
5
N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T T T S I +S L G N G V C T +K E C +C
4
N T L T T S T S-I F I S R G L G N D G W V C T W S K E C M P S C
35
48.6%
NZ_GG657757.1 and 1 other:
NZ_GG657757.1 Lanthipeptides: SSQG_RS20730_lanthipeptide
Lanthipeptides: SSQG_RS20730_lanthipeptide
3
T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
+ N T T S L G I G N G C T T K E C Q +C
3
S A N F T T F S L S G I F-----G N D G D C C T L T K E C Q A S C
32
48.6%
NZ_KL997439.1 and 1 other:
NZ_KL997439.1 Lanthipeptides: IQ62_RS47105_lanthipeptide
Lanthipeptides: IQ62_RS47105_lanthipeptide
3
T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
+ N T T T +L S L G+K G C T T K E C Q +C
3
S L N T T T F T L-----S A Q L G D K G D C C T A T K E C Q P S C
32
47.4%
NZ_WHOM01000078.1 and 1 other:
NZ_WHOM01000078.1 Lanthipeptides: GCN81_RS29300_lanthipeptide
Lanthipeptides: GCN81_RS29300_lanthipeptide
4
W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
W T T +S L S V L G N G C T T E C Q C
4
W G T T L S S L S C Y G A S Y V L G N N G N F C T A T A E C Q S N C
37
45.9%
NZ_QKTG01000020.1 and 1 other:
NZ_QKTG01000020.1 Lanthipeptides: DEI99_RS16920_lanthipeptide
Lanthipeptides: DEI99_RS16920_lanthipeptide
6
T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
T T T+L V S L G N G C T T E C Q C
5
T T V T T L S C Y G V S W A L G N D G N F C T A T V E C Q S N C
36
45.9%
NZ_WITJ01000001.1 and 1 other:
NZ_WITJ01000001.1 Lanthipeptides: GHI93_RS00065_lanthipeptide
Lanthipeptides: GHI93_RS00065_lanthipeptide
3
T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
T W N +S+ V+ L G N G V C T T E C Q C
3
T W N L V F S S V----V T L A L G N N G Y V C T W T H E C Q A N C
33
44.7%
NZ_BMRY01000003.1 and 24 others:
NZ_BMRY01000003.1 Lanthipeptides: IE140_RS12370_lanthipeptide NZ_BMSZ01000006.1 Lanthipeptides: IE135_RS12780_lanthipeptide NZ_BMSZ01000006.1 Lanthipeptides: IE135_RS12780_lanthipeptide NZ_BNBJ01000003.1 Lanthipeptides: IE304_RS05285_lanthipeptide NZ_BNBJ01000003.1 Lanthipeptides: IE304_RS05285_lanthipeptide NZ_CP021707.1 Lanthipeptides: CCZ36_RS18205_lanthipeptide NZ_CP079114.1 Lanthipeptides: KV381_RS19425_lanthipeptide NZ_CP079114.1 Lanthipeptides: KV381_RS19425_lanthipeptide NZ_CP084357.1 Lanthipeptides: LEL86_RS34965_lanthipeptide NZ_CP084357.1 Lanthipeptides: LEL86_RS34965_lanthipeptide NZ_JALDPQ010000054.1 Lanthipeptides: MQC87_RS11020_lanthipeptide NZ_JALDPQ010000054.1 Lanthipeptides: MQC87_RS11020_lanthipeptide NZ_JAMFLF010000021.1 Lanthipeptides: M1212_RS32880_lanthipeptide NZ_JAMFLF010000021.1 Lanthipeptides: M1212_RS32880_lanthipeptide NZ_JNLT01000014.1 Lanthipeptides: CD02_RS38630_lanthipeptide NZ_JNLT01000014.1 Lanthipeptides: CD02_RS38630_lanthipeptide NZ_JNZV01000231.1 Lanthipeptides: BG84_RS0100145_lanthipeptide NZ_JNZV01000231.1 Lanthipeptides: BG84_RS0100145_lanthipeptide NZ_KZ819178.1 Lanthipeptides: DBP20_RS18455_lanthipeptide NZ_KZ819178.1 Lanthipeptides: DBP20_RS18455_lanthipeptide NZ_LZRD01000017.1 Lanthipeptides: A3Q37_RS19720_lanthipeptide NZ_LZRD01000017.1 Lanthipeptides: A3Q37_RS19720_lanthipeptide NZ_NNBN01000001.1 Lanthipeptides: CG717_RS03735_lanthipeptide NZ_NNBN01000001.1 Lanthipeptides: CG717_RS03735_lanthipeptide
Lanthipeptides: IE140_RS12370_lanthipeptide
4
W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
W T +S L S V L G N G C T T E C Q C
4
W G T I V S S L S C Y G A S Y V L G N N G N F C T A T A E C Q N N C
37

#### MIBiG 4.0 matches for D9777_RS18850

35.1%
BGC0002110.3 (QKV49893.1):
Lanthipeptide: birimositide
16
V S E V L G N K G K V C T G T K E C Q G T C
37
+S L G N G C T T K E C Q C
8
L S N A L G N N G G W C T L T K E C Q P N C
29
32.4%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
16
V S E V L G N K G K V C T G T K E C Q G T C
37
+S L G N K G C T T E C +C
6
I S C R L G N K G A Y C T L T V E C M P S C
27
17.9%
BGC0001229.4 (SBI_06990):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
27
C T G T K E C Q G T C
37
C T +K E C Q C
28
C T L S K E C Q P N C
38
allorf_3701381_3701527
Leader:
MLKLYTLYVFFHVIPLTMRMFLQSLPIA
Core:
R I S C R I I F F I N C K K Y D I L S A
Core with dehydrations:
R I Dha Cys R I I F F I N Cys K K Y D I L Dha A

#### antiSMASH-DB 4.0 matches for allorf_3701381_3701527

100.0%
NZ_CP017953.1 and 11 others:
NZ_CP021011.1 Lanthipeptides: allorf_1217915_1218061_lanthipeptide NZ_CP033054.1 Lanthipeptides: allorf_3701381_3701527_lanthipeptide NZ_CP041784.1 Lanthipeptides: allorf_3241959_3242105_lanthipeptide NZ_CP047268.1 Lanthipeptides: allorf_3722701_3722847_lanthipeptide NZ_CP072563.1 Lanthipeptides: allorf_3252899_3253045_lanthipeptide NZ_CP097784.1 Lanthipeptides: allorf_3200225_3200371_lanthipeptide NZ_CP116014.1 Lanthipeptides: allorf_3458073_3458219_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: allorf_294511_294657_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: allorf_145128_145274_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: allorf_252303_252449_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: allorf_294859_295005_lanthipeptide
Lanthipeptides: allorf_3266320_3266466_lanthipeptide
1
R I S C R I I F F I N C K K Y D I L S A
20
R I S C R I I F F I N C K K Y D I L S A
1
R I S C R I I F F I N C K K Y D I L S A
20
95.0%
NZ_CP048002.1:
Lanthipeptides: allorf_1109061_1109207_lanthipeptide
2
I S C R I I F F I N C K K Y D I L S A
20
I S C R I I F F I N C K K Y D I L S A
2
I S C R I I F F I N C K K Y D I L S A
20
23.1%
NC_023073.1 and 9 others:
NZ_CP016395.1 Lanthipeptides: BBJ33_RS20395_lanthipeptide NZ_CP023133.1 Lanthipeptides: CJP14_RS21475_lanthipeptide NZ_CP025341.1 Lanthipeptides: CXR48_RS19560_lanthipeptide NZ_CP028440.1 Lanthipeptides: DA378_RS19590_lanthipeptide NZ_CP031694.1 Lanthipeptides: DXY21_RS20475_lanthipeptide NZ_CP065790.1 Lanthipeptides: I8N72_RS06455_lanthipeptide NZ_CP074685.1 Lanthipeptides: KH263_RS06170_lanthipeptide NZ_CP090905.1 Lanthipeptides: L0961_RS06305_lanthipeptide NZ_LN999829.1 Lanthipeptides: BAMMD1_RS19360_lanthipeptide
Lanthipeptides: U722_RS20000_lanthipeptide
9
F I N C K K Y D I L S A
20
F+ C+ D I L A
13
F L R C Q N D D I L P A
24
allorf_3701413_3701496
Leader:
MMKKMMRQDMRAIGS
Core:
D C K N I R I V S G I T
Core with dehydrations:
D Cys K N I R I V Dha G I Dhb

#### antiSMASH-DB 4.0 matches for allorf_3701413_3701496

100.0%
NZ_CP017953.1 and 12 others:
NZ_CP021011.1 Lanthipeptides: allorf_1217947_1218030_lanthipeptide NZ_CP033054.1 Lanthipeptides: allorf_3701413_3701496_lanthipeptide NZ_CP041784.1 Lanthipeptides: allorf_3241991_3242074_lanthipeptide NZ_CP047268.1 Lanthipeptides: allorf_3722733_3722816_lanthipeptide NZ_CP048002.1 Lanthipeptides: allorf_1109093_1109176_lanthipeptide NZ_CP072563.1 Lanthipeptides: allorf_3252931_3253014_lanthipeptide NZ_CP097784.1 Lanthipeptides: allorf_3200257_3200340_lanthipeptide NZ_CP116014.1 Lanthipeptides: allorf_3458105_3458188_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: allorf_294543_294626_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: allorf_145159_145242_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: allorf_252335_252418_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: allorf_294891_294974_lanthipeptide
Lanthipeptides: allorf_3266352_3266435_lanthipeptide
1
D C K N I R I V S G I T
12
D C K N I R I V S G I T
1
D C K N I R I V S G I T
12
allorf_3724234_3724464
Leader:
MVLSDRNAIMKADKGRGRTPFPFFHENRLSESAGL
Core:
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
Core with dehydrations:
L Q N V R V L K F P R H F R F L Dha R L P W L R R R Dha A P Cys P E A A I Cys P A A E A Dha

#### antiSMASH-DB 4.0 matches for allorf_3724234_3724464

100.0%
NZ_CP017953.1 and 12 others:
NZ_CP021011.1 Lanthipeptides: allorf_1239450_1239680_lanthipeptide NZ_CP033054.1 Lanthipeptides: allorf_3724234_3724464_lanthipeptide NZ_CP041784.1 Lanthipeptides: allorf_3263499_3263729_lanthipeptide NZ_CP047268.1 Lanthipeptides: allorf_3744242_3744472_lanthipeptide NZ_CP048002.1 Lanthipeptides: allorf_1130609_1130839_lanthipeptide NZ_CP072563.1 Lanthipeptides: allorf_3274357_3274587_lanthipeptide NZ_CP097784.1 Lanthipeptides: allorf_3221763_3221993_lanthipeptide NZ_CP116014.1 Lanthipeptides: allorf_3479615_3479845_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: allorf_316050_316280_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: allorf_123482_123712_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: allorf_273844_274074_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: allorf_316397_316627_lanthipeptide
Lanthipeptides: allorf_3287857_3288087_lanthipeptide
1
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
41
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
1
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
41
31.7%
NZ_CP011020.1:
Lanthipeptides: allorf_1818981_1819088_lanthipeptide
16
L S R L P W L R R R S A P C-----P E A A I C P A
37
L+R L + R R S P A A I C P A
1
L A R L C F G L R R S L P V R H G Q R Q N A A I C P A
27
19.5%
NZ_FOYL01000002.1:
Lanthipeptides: allorf_0629623_0629850_lanthipeptide
17
S R L P W L R R R S A P C
29
S R W+R R S P C
14
S R A T W V R M R S G P C
26
with 2 more sequence matches
14.3%
NZ_BNCA01000011.1:
Lanthipeptides: allorf_160997_161218_lanthipeptide
20
P W L R R R S A P C P E A A I C P
36
P R+ P C P A C P
37
P P D R Q P P G P C P P A G S C P
53
13.5%
NZ_JAHTIK010000001.1:
Lanthipeptides: allorf_2154999_2155214_lanthipeptide
19
L P W L R R R S A P C P
30
L P W R P C P
2
L P W R M R D G G P C P
13

#### Lanthipeptide(s) for D9777_RS18845

D9777_RS18840
Leader:
MKKDMVKKVSGFIEEDELISLANGDNATGG
Core:
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
Core with dehydrations:
A Dhb P A Dhb V V L Dhb A Dhb I G L Dhb G Dhb Dhb F Dhb V Dhb L Dha A A Dha Cys P Dhb Dha A Cys Dhb K Q Cys N K

#### antiSMASH-DB 4.0 matches for D9777_RS18840

100.0%
NZ_CP033054.1 and 11 others:
NZ_CP033054.1 Lanthipeptides: D9777_RS18840_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18605_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18605_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15935_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15935_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17885_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17885_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12560_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12560_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01365_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01365_lanthipeptide
Lanthipeptides: D9777_RS18840_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
97.4%
NZ_CP017953.1 and 15 others:
NZ_CP017953.1 Lanthipeptides: BAMY_RS16390_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06470_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06470_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15890_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15890_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05695_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05695_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16180_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16180_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16150_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16150_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11805_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11805_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06815_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06815_lanthipeptide
Lanthipeptides: BAMY_RS16390_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
A T P T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
1
A T P-T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
38
76.9%
NZ_JALAUA010000003.1 and 1 other:
NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04870_lanthipeptide
Lanthipeptides: MOD32_RS04870_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
T P T +L T A L T G T T F T V T L S A A S C P T S A C T C N K
1
G T P V T A I L T A---L T G T T F T V T L S A A S C P T S A C T N L C N K
36
with 112 more sequence matches
Only the first 10 are displayed here.
74.4%
NZ_CP047645.1 and 5 others:
NZ_CP047645.1 Lanthipeptides: GSN02_RS17435_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18550_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18550_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03735_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03735_lanthipeptide
Lanthipeptides: GSN02_RS17435_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
T P T ++T A L T G T T F T V T L S A A S C P T S A C T C N K
1
G T P V T A I I T A---L T G T T F T V T L S A A S C P T S A C T N L C N K
36
53.8%
NZ_CKMQ01000043.1 and 8 others:
NZ_CKMQ01000043.1 Lanthipeptides: AE832_RS09950_lanthipeptide NZ_CKMR01000002.1 Lanthipeptides: AD782_RS02065_lanthipeptide NZ_CKMR01000002.1 Lanthipeptides: AD782_RS02065_lanthipeptide NZ_FIXU01000003.1 Lanthipeptides: A1M11_RS01730_lanthipeptide NZ_FIXU01000003.1 Lanthipeptides: A1M11_RS01730_lanthipeptide NZ_LR216041.1 Lanthipeptides: E0F00_RS05470_lanthipeptide NZ_LR216046.1 Lanthipeptides: E0E82_RS05985_lanthipeptide NZ_LR216046.1 Lanthipeptides: E0E82_RS05985_lanthipeptide
Lanthipeptides: AE832_RS09950_lanthipeptide
7
V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
++ A T I G T F T V T L+A +C P T S C T K C N K
5
I I P A T I S F V G V T F T V T L N A G A C P T S G C T K S C N K
37
53.8%
NZ_PNGD01000001.1 and 1 other:
NZ_PNGD01000001.1 Lanthipeptides: CJ239_RS00165_lanthipeptide
Lanthipeptides: CJ239_RS00165_lanthipeptide
7
V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
++ A T I G T F T V T L+A +C P T S C T K C N K
5
I I A A T I S F A G V T F T V T L N A G A C P T S G C T K S C N K
37
46.2%
NZ_BLIS01000009.1 and 1 other:
NZ_BLIS01000009.1 Lanthipeptides: GVO03_RS04825_lanthipeptide
Lanthipeptides: GVO03_RS04825_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
A+P A T T I G T +S A +C P T S A C T+ C
4
A S P A T P-Y T P A I G K G V I A V T A F V S A N T C P T S A C T R A C
39
46.2%
NZ_CP009288.1 and 3 others:
NZ_CP009288.1 Lanthipeptides: PDUR_RS29295_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01575_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01575_lanthipeptide
Lanthipeptides: PDUR_RS29295_lanthipeptide
3
P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
P T +L T T T T V T+S A+ C P T+ C T Q C
6
P E T T I L T-T S S W T C I T A G V T V S A S L C P T T K C T S Q C
39
46.2%
NZ_PCGR01000003.1 and 1 other:
NZ_PCGR01000003.1 Lanthipeptides: CQS04_RS09625_lanthipeptide
Lanthipeptides: CQS04_RS09625_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
A T P T+V+T A G +S A S C P T+A C T+ C
1
A T P-T I V I T A I T G Y--------I S A N S C P T T A C T R A C
28
46.2%
NZ_QRWZ01000002.1 and 3 others:
NZ_QRWZ01000002.1 Lanthipeptides: DWX18_RS02625_lanthipeptide NZ_SPGD01000003.1 Lanthipeptides: FGQ50_RS01930_lanthipeptide NZ_SPGD01000003.1 Lanthipeptides: FGQ50_RS01930_lanthipeptide
Lanthipeptides: DWX18_RS02625_lanthipeptide
2
T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C
37
T P A T T I G T +S A +C P T S A C T+ C
2
T P A T P-Y T P A I G K G V I A V T A F V S A N T C P T S A C T R A C
36
43.6%
NZ_WHOM01000078.1 and 1 other:
NZ_WHOM01000078.1 Lanthipeptides: GCN81_RS29290_lanthipeptide
Lanthipeptides: GCN81_RS29290_lanthipeptide
8
L T A T I G L T G T T F T V T L S A A---S C P T S A C T K Q C
37
+T T I L T V S A A C P T S C T K+C
8
I T P T I-L P A T G V I V G A S A A L Q G G C P T S G C T K R C
39
41.0%
NZ_CP102975.1 and 1 other:
NZ_FMOE01000002.1 Lanthipeptides: BJT27_RS07810_lanthipeptide
Lanthipeptides: NW953_RS00175_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N K
39
A T P A V+ T V S A C P T A C+ +C K
1
A T P A V V I---------T G I L V A A S T A Q C P T L A C S S R C G K
30
41.0%
NZ_JAENHN010000066.1 and 1 other:
NZ_JAENHN010000066.1 Lanthipeptides: JHL18_RS24400_lanthipeptide
Lanthipeptides: JHL18_RS24400_lanthipeptide
1
A T P A T V V L T A T I G L T G T T F T V T L S A A S C P T S A C T K Q C N
38
T P V+ A T+G L T T A C T A C T C+
2
G T P C A V I--A T V G L T I K V A T----A V V C E T G A C T G Y C H
33

#### MIBiG 4.0 matches for D9777_RS18840

25.6%
BGC0001229.4 (SBI_06989):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
21
V T L S A A S C P T S A C T K Q C
37
V +S A A C P T+ C T +C
21
V G V S A A F C P T T K C T S R C
37
15.4%
BGC0002110.3 (QKV49894.1):
Lanthipeptide: birimositide
28
C P T S A C T K Q C
37
C P T+ C T +C
17
C P T T K C T S K C
26
12.8%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
15
T G T T F T V T L S A A S C P T S
31
T G + A+C S
13
T G A L M G C N M K T A T C H C S
29
D9777_RS18850
Leader:
MKKTKILKTPELKVTKDLNLIDPCGDVLEEIKEHEVSGA
Core:
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
Core with dehydrations:
F N Dhb W N Dhb Dhb Dhb Dhb Dha L G G I L V Dha E V L G N K G K V Cys Dhb G Dhb K E Cys Q G Dhb Cys

#### antiSMASH-DB 4.0 matches for D9777_RS18850

100.0%
NZ_CP017953.1 and 27 others:
NZ_CP017953.1 Lanthipeptides: BAMY_RS16400_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06480_lanthipeptide NZ_CP021011.1 Lanthipeptides: B6257_RS06480_lanthipeptide NZ_CP033054.1 Lanthipeptides: D9777_RS18850_lanthipeptide NZ_CP033054.1 Lanthipeptides: D9777_RS18850_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15900_lanthipeptide NZ_CP041784.1 Lanthipeptides: FOV14_RS15900_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18615_lanthipeptide NZ_CP047268.1 Lanthipeptides: GKS41_RS18615_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05705_lanthipeptide NZ_CP048002.1 Lanthipeptides: GWK37_RS05705_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15945_lanthipeptide NZ_CP072563.1 Lanthipeptides: J6600_RS15945_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16190_lanthipeptide NZ_CP097326.1 Lanthipeptides: M5J22_RS16190_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16160_lanthipeptide NZ_CP097784.1 Lanthipeptides: MF619_RS16160_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17895_lanthipeptide NZ_CP116014.1 Lanthipeptides: PF996_RS17895_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11815_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: G6H00_RS11815_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12550_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: G9F75_RS12550_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01375_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: K8B35_RS01375_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06825_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: ASQ47_RS06825_lanthipeptide
Lanthipeptides: BAMY_RS16400_lanthipeptide
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
91.9%
NZ_CP047645.1 and 7 others:
NZ_CP047645.1 Lanthipeptides: GSN02_RS17445_lanthipeptide NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04860_lanthipeptide NZ_JALAUA010000003.1 Lanthipeptides: MOD32_RS04860_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18560_lanthipeptide NZ_NJRE01000008.1 Lanthipeptides: CE047_RS18560_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03725_lanthipeptide NZ_VIOH01000001.1 Lanthipeptides: FLN47_RS03725_lanthipeptide
Lanthipeptides: GSN02_RS17445_lanthipeptide
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
F N T W N T T T T S+G I L V S E V G N K G K V C T G T K E C Q G T C
1
F N T W N T T T T S V G T I L V S E V F G N K G K V C T G T K E C Q G T C
37
60.5%
NZ_CM000756.1 and 7 others:
NZ_CM000756.1 Lanthipeptides: BTHUR0011_RS34475_lanthipeptide NZ_CP031749.1 Lanthipeptides: DPQ26_RS30450_lanthipeptide NZ_CP031749.1 Lanthipeptides: DPQ26_RS30450_lanthipeptide NZ_CP036071.1 Lanthipeptides: EXW41_RS29770_lanthipeptide NZ_CP036071.1 Lanthipeptides: EXW41_RS29770_lanthipeptide NZ_WBPC01000036.1 Lanthipeptides: F8159_RS30260_lanthipeptide NZ_WBPC01000036.1 Lanthipeptides: F8159_RS30260_lanthipeptide
Lanthipeptides: BTHUR0011_RS34475_lanthipeptide
1
F N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T W N T T T S I++S E G N K G K V C T T E C C
1
I N T W N T T A T S T S-I I I S E T F G N K G K V C T Y T V E C V N N C
36
with 110 more sequence matches
Only the first 10 are displayed here.
56.8%
NZ_JAGKQT010000007.1 and 3 others:
NZ_JAGKQT010000007.1 Lanthipeptides: J2M30_RS09860_lanthipeptide NZ_LVYL01000010.1 Lanthipeptides: A3863_RS05855_lanthipeptide NZ_LVYL01000010.1 Lanthipeptides: A3863_RS05855_lanthipeptide
Lanthipeptides: J2M30_RS09860_lanthipeptide
2
N T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T W N T +T S I V S +G N G K V C T T E C C
1
N T W N T I S T S T C-I A V S H F V G N D G K V C T Y T V E C V N N C
35
54.1%
NZ_CP009288.1 and 3 others:
NZ_CP009288.1 Lanthipeptides: PDUR_RS25150_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01580_lanthipeptide NZ_CP076607.1 Lanthipeptides: KP014_RS01580_lanthipeptide
Lanthipeptides: PDUR_RS25150_lanthipeptide
5
N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T T T S I L+S L G N G V C T T K E C +C
4
N T L T T S-T S I L I S M T L G N N G W V C T A T K E C M P S C
35
51.3%
NZ_JALGRP010000007.1 and 1 other:
NZ_JALGRP010000007.1 Lanthipeptides: MT347_RS12955_lanthipeptide
Lanthipeptides: MT347_RS12955_lanthipeptide
4
W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
W T T T S L V S V G N G+V C T T E C Q C
5
W T T T I T S L T C Y G V S W V A G N N G Q V C T A T V E C Q N N C
38
48.6%
NZ_CP009280.1 and 1 other:
NZ_CP009280.1 Lanthipeptides: P40081_RS01820_lanthipeptide
Lanthipeptides: P40081_RS01820_lanthipeptide
5
N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
N T T T S I +S L G N G V C T +K E C +C
4
N T L T T S T S-I F I S R G L G N D G W V C T W S K E C M P S C
35
48.6%
NZ_GG657757.1 and 1 other:
NZ_GG657757.1 Lanthipeptides: SSQG_RS20730_lanthipeptide
Lanthipeptides: SSQG_RS20730_lanthipeptide
3
T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
+ N T T S L G I G N G C T T K E C Q +C
3
S A N F T T F S L S G I F-----G N D G D C C T L T K E C Q A S C
32
48.6%
NZ_KL997439.1 and 1 other:
NZ_KL997439.1 Lanthipeptides: IQ62_RS47105_lanthipeptide
Lanthipeptides: IQ62_RS47105_lanthipeptide
3
T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
+ N T T T +L S L G+K G C T T K E C Q +C
3
S L N T T T F T L-----S A Q L G D K G D C C T A T K E C Q P S C
32
47.4%
NZ_WHOM01000078.1 and 1 other:
NZ_WHOM01000078.1 Lanthipeptides: GCN81_RS29300_lanthipeptide
Lanthipeptides: GCN81_RS29300_lanthipeptide
4
W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
W T T +S L S V L G N G C T T E C Q C
4
W G T T L S S L S C Y G A S Y V L G N N G N F C T A T A E C Q S N C
37
45.9%
NZ_QKTG01000020.1 and 1 other:
NZ_QKTG01000020.1 Lanthipeptides: DEI99_RS16920_lanthipeptide
Lanthipeptides: DEI99_RS16920_lanthipeptide
6
T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
T T T+L V S L G N G C T T E C Q C
5
T T V T T L S C Y G V S W A L G N D G N F C T A T V E C Q S N C
36
45.9%
NZ_WITJ01000001.1 and 1 other:
NZ_WITJ01000001.1 Lanthipeptides: GHI93_RS00065_lanthipeptide
Lanthipeptides: GHI93_RS00065_lanthipeptide
3
T W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
T W N +S+ V+ L G N G V C T T E C Q C
3
T W N L V F S S V----V T L A L G N N G Y V C T W T H E C Q A N C
33
44.7%
NZ_BMRY01000003.1 and 24 others:
NZ_BMRY01000003.1 Lanthipeptides: IE140_RS12370_lanthipeptide NZ_BMSZ01000006.1 Lanthipeptides: IE135_RS12780_lanthipeptide NZ_BMSZ01000006.1 Lanthipeptides: IE135_RS12780_lanthipeptide NZ_BNBJ01000003.1 Lanthipeptides: IE304_RS05285_lanthipeptide NZ_BNBJ01000003.1 Lanthipeptides: IE304_RS05285_lanthipeptide NZ_CP021707.1 Lanthipeptides: CCZ36_RS18205_lanthipeptide NZ_CP079114.1 Lanthipeptides: KV381_RS19425_lanthipeptide NZ_CP079114.1 Lanthipeptides: KV381_RS19425_lanthipeptide NZ_CP084357.1 Lanthipeptides: LEL86_RS34965_lanthipeptide NZ_CP084357.1 Lanthipeptides: LEL86_RS34965_lanthipeptide NZ_JALDPQ010000054.1 Lanthipeptides: MQC87_RS11020_lanthipeptide NZ_JALDPQ010000054.1 Lanthipeptides: MQC87_RS11020_lanthipeptide NZ_JAMFLF010000021.1 Lanthipeptides: M1212_RS32880_lanthipeptide NZ_JAMFLF010000021.1 Lanthipeptides: M1212_RS32880_lanthipeptide NZ_JNLT01000014.1 Lanthipeptides: CD02_RS38630_lanthipeptide NZ_JNLT01000014.1 Lanthipeptides: CD02_RS38630_lanthipeptide NZ_JNZV01000231.1 Lanthipeptides: BG84_RS0100145_lanthipeptide NZ_JNZV01000231.1 Lanthipeptides: BG84_RS0100145_lanthipeptide NZ_KZ819178.1 Lanthipeptides: DBP20_RS18455_lanthipeptide NZ_KZ819178.1 Lanthipeptides: DBP20_RS18455_lanthipeptide NZ_LZRD01000017.1 Lanthipeptides: A3Q37_RS19720_lanthipeptide NZ_LZRD01000017.1 Lanthipeptides: A3Q37_RS19720_lanthipeptide NZ_NNBN01000001.1 Lanthipeptides: CG717_RS03735_lanthipeptide NZ_NNBN01000001.1 Lanthipeptides: CG717_RS03735_lanthipeptide
Lanthipeptides: IE140_RS12370_lanthipeptide
4
W N T T T T S L G G I L V S E V L G N K G K V C T G T K E C Q G T C
37
W T +S L S V L G N G C T T E C Q C
4
W G T I V S S L S C Y G A S Y V L G N N G N F C T A T A E C Q N N C
37

#### MIBiG 4.0 matches for D9777_RS18850

35.1%
BGC0002110.3 (QKV49893.1):
Lanthipeptide: birimositide
16
V S E V L G N K G K V C T G T K E C Q G T C
37
+S L G N G C T T K E C Q C
8
L S N A L G N N G G W C T L T K E C Q P N C
29
32.4%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
16
V S E V L G N K G K V C T G T K E C Q G T C
37
+S L G N K G C T T E C +C
6
I S C R L G N K G A Y C T L T V E C M P S C
27
17.9%
BGC0001229.4 (SBI_06990):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
27
C T G T K E C Q G T C
37
C T +K E C Q C
28
C T L S K E C Q P N C
38
allorf_3724234_3724464
Leader:
MVLSDRNAIMKADKGRGRTPFPFFHENRLSESAGL
Core:
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
Core with dehydrations:
L Q N V R V L K F P R H F R F L Dha R L P W L R R R Dha A P Cys P E A A I Cys P A A E A Dha

#### antiSMASH-DB 4.0 matches for allorf_3724234_3724464

100.0%
NZ_CP017953.1 and 12 others:
NZ_CP021011.1 Lanthipeptides: allorf_1239450_1239680_lanthipeptide NZ_CP033054.1 Lanthipeptides: allorf_3724234_3724464_lanthipeptide NZ_CP041784.1 Lanthipeptides: allorf_3263499_3263729_lanthipeptide NZ_CP047268.1 Lanthipeptides: allorf_3744242_3744472_lanthipeptide NZ_CP048002.1 Lanthipeptides: allorf_1130609_1130839_lanthipeptide NZ_CP072563.1 Lanthipeptides: allorf_3274357_3274587_lanthipeptide NZ_CP097784.1 Lanthipeptides: allorf_3221763_3221993_lanthipeptide NZ_CP116014.1 Lanthipeptides: allorf_3479615_3479845_lanthipeptide NZ_JAAKXX010000011.1 Lanthipeptides: allorf_316050_316280_lanthipeptide NZ_JAANHO010000006.1 Lanthipeptides: allorf_123482_123712_lanthipeptide NZ_JAIONG010000001.1 Lanthipeptides: allorf_273844_274074_lanthipeptide NZ_LMAG01000012.1 Lanthipeptides: allorf_316397_316627_lanthipeptide
Lanthipeptides: allorf_3287857_3288087_lanthipeptide
1
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
41
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
1
L Q N V R V L K F P R H F R F L S R L P W L R R R S A P C P E A A I C P A A E A S
41
31.7%
NZ_CP011020.1:
Lanthipeptides: allorf_1818981_1819088_lanthipeptide
16
L S R L P W L R R R S A P C-----P E A A I C P A
37
L+R L + R R S P A A I C P A
1
L A R L C F G L R R S L P V R H G Q R Q N A A I C P A
27
19.5%
NZ_FOYL01000002.1:
Lanthipeptides: allorf_0629623_0629850_lanthipeptide
17
S R L P W L R R R S A P C
29
S R W+R R S P C
14
S R A T W V R M R S G P C
26
with 2 more sequence matches
14.3%
NZ_BNCA01000011.1:
Lanthipeptides: allorf_160997_161218_lanthipeptide
20
P W L R R R S A P C P E A A I C P
36
P R+ P C P A C P
37
P P D R Q P P G P C P P A G S C P
53
13.5%
NZ_JAHTIK010000001.1:
Lanthipeptides: allorf_2154999_2155214_lanthipeptide
19
L P W L R R R S A P C P
30
L P W R P C P
2
L P W R M R D G G P C P
13

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.53 out of 26.06
Confidence: strong
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.56 out of 27.78
Confidence: medium
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 29.41 out of 36.54
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.20 out of 26.06
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 16.98 out of 18.16
Confidence: strong
Additional weak hits (8):
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 23.22 out of 28.14
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 19.83 out of 26.12
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 23.01 out of 28.14
Confidence: weak
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 20.87 out of 27.55
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.14 out of 30.22
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 21.73 out of 29.65
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 23.66 out of 32.93
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 19.59 out of 30.12
Confidence: weak
Lanthipeptides
TFBS Finder
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.

D9777_RS18840 - Class II
  Cleavage pHMM score: -5.10
  RODEO score: 0
  Monoisotopic mass: 3576.9 Da
  Molecular weight: 3579.1 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3597.1 Da N = 1
    3615.2 Da N = 2
    3633.2 Da N = 3
    3651.2 Da N = 4
    3669.2 Da N = 5
    3687.2 Da N = 6
    3705.3 Da N = 7
    3723.3 Da N = 8
    3741.3 Da N = 9
    3759.3 Da N = 10
    3777.3 Da N = 11
D9777_RS18850 - Class II
  Cleavage pHMM score: -3.20
  RODEO score: 0
  Monoisotopic mass: 3666.9 Da
  Molecular weight: 3669.1 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3687.1 Da N = 1
    3705.2 Da N = 2
    3723.2 Da N = 3
    3741.2 Da N = 4
    3759.2 Da N = 5
    3777.2 Da N = 6
    3795.3 Da N = 7
allorf_3701381_3701527 - Class II
  Cleavage pHMM score: -6.60
  RODEO score: 0
  Monoisotopic mass: 2366.3 Da
  Molecular weight: 2367.9 Da
  Number of bridges: 2
allorf_3701413_3701496 - Class II
  Cleavage pHMM score: -6.80
  RODEO score: 0
  Monoisotopic mass: 1281.7 Da
  Molecular weight: 1282.5 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1300.5 Da N = 1
allorf_3724234_3724464 - Class II
  Cleavage pHMM score: -5.70
  RODEO score: 0
  Monoisotopic mass: 4704.6 Da
  Molecular weight: 4707.5 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4725.5 Da N = 1
D9777_RS18840 - Class II
  Cleavage pHMM score: -5.10
  RODEO score: 0
  Monoisotopic mass: 3576.9 Da
  Molecular weight: 3579.1 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3597.1 Da N = 1
    3615.2 Da N = 2
    3633.2 Da N = 3
    3651.2 Da N = 4
    3669.2 Da N = 5
    3687.2 Da N = 6
    3705.3 Da N = 7
    3723.3 Da N = 8
    3741.3 Da N = 9
    3759.3 Da N = 10
    3777.3 Da N = 11
D9777_RS18850 - Class II
  Cleavage pHMM score: -3.20
  RODEO score: 0
  Monoisotopic mass: 3666.9 Da
  Molecular weight: 3669.1 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3687.1 Da N = 1
    3705.2 Da N = 2
    3723.2 Da N = 3
    3741.2 Da N = 4
    3759.2 Da N = 5
    3777.2 Da N = 6
    3795.3 Da N = 7
allorf_3724234_3724464 - Class II
  Cleavage pHMM score: -5.70
  RODEO score: 0
  Monoisotopic mass: 4704.6 Da
  Molecular weight: 4707.5 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4725.5 Da N = 1

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
HgtR | Hydrogen-dependent regulator
MogR | Repressor of flagellar motility genes

NZ_CP033054.1 - Region 14 - 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: 3,824,995 - 3,893,415 nt. (total: 68,421 nt) Show pHMM detection rules used
NRPS: cds(Condensation and (AMP-binding or A-OX) and not alpha_am_amid)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
NRPS/PKS domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
D9777_RS19465: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Hydrolases: esterase
D9777_RS19435: thioesterase

smcogs
  SMCOG1004: thioesterase

Ligases: ligase
D9777_RS19455: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

D9777_RS19460: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters
Shows areas 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
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001833.4 |  | 0.72 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001135.5 |  | 0.72 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001758.4 |  | 0.72 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001133.4 |  | 0.71 | NRPS | taxlllaid A | Xenorhabdus bovienii SS-2004
BGC0001128.4 |  | 0.70 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  | 0.70 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0002071.2 |  | 0.69 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027
BGC0001132.4 |  | 0.69 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001833.4 |  | 0.72 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001135.5 |  | 0.72 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001758.4 |  | 0.72 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001133.4 |  | 0.71 | NRPS | taxlllaid A | Xenorhabdus bovienii SS-2004
BGC0001128.4 |  | 0.70 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  | 0.70 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0002071.2 |  | 0.69 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027
BGC0001132.4 |  | 0.69 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.

No significant matches found.

Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.

No significant matches found.

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 17.74 out of 20.47
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.37 out of 20.47
Confidence: medium
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.31 out of 18.57
Confidence: strong
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 18.58 out of 21.84
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.52 out of 26.06
Confidence: medium
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.34 out of 27.55
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.98 out of 24.78
Confidence: medium
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 16.07 out of 18.46
Confidence: medium
Additional weak hits (4):
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.39 out of 32.74
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 23.71 out of 30.97
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.73 out of 39.62
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 20.81 out of 30.12
Confidence: weak
Module view
Shows module structures for each candidate cluster 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, and an explanation of the visualisation is available here.
Legend
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 domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
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 19, location 3824994 - 3893415:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (fatty_acid - D-Cys - Ser - Cys - Ala - X) + (Asn - D-Asn)

Direct lookup in NORINE database: strict or relaxed
Link to NORINE database query form
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation 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).
D9777_RS19455: X - Asn - Asn
Search NORINE for peptide: strict or relaxed
AMP-binding (299..683): X
nrpys: (unknown)

SVM prediction details:
  Predicted physicochemical class:
    N/A
  Large clusters prediction:
    N/A
  Small clusters prediction:
    N/A
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    MTYAFDQAVGDPSLESGGELNTYGPTESTVNATS
  Nearest Stachelhaus code(s):
    4-ohGln or Gln DQGITGTVTK (50% 8Å match)
  Stachelhaus code match:
    70% (weak)

AMP-binding (1320..1708): Asn
nrpys: Asn

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    asp,asn (Asp, Asn)
  Single AA prediction:
    asn (Asn)

Stachelhaus prediction details:
  Stachelhaus sequence:
    YYATFDLSVTSLKLIVGGEHNEYGPTETTVGCCD
  Nearest Stachelhaus code(s):
    Asn DLTKIGEVGK (76% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (2346..2734): Asn
nrpys: Asn

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Aliphatic chain with H-bond donor (Asp, Asn, Glu, Gln, Aad)
  Small clusters prediction:
    asp,asn (Asp, Asn)
  Single AA prediction:
    asn (Asn)

Stachelhaus prediction details:
  Stachelhaus sequence:
    YYATFDLSVTSLKLIVGGEHNEYGPTETTVGCCD
  Nearest Stachelhaus code(s):
    Asn DLTKIGEVGK (76% 8Å match)
  Stachelhaus code match:
    100% (strong)

D9777_RS19460: fatty_acid - Cys - Ser - Cys - Ala
Search NORINE for peptide: strict or relaxed
CAL_domain (168..474): fatty_acid
minowa: fatty_acid

Prediction, score:
  fatty_acid: 72.8
  Acetyl-CoA: 26.6
  NH2: 24.7
  shikimic_acid: 0.0
  AHBA: 0.0

AMP-binding (1130..1514): Cys
nrpys: Cys

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Small clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Single AA prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TDISFDLSVYDGNSMLSGDIGLGGATEGSIWSIY
  Nearest Stachelhaus code(s):
    Cys DLYNMSLIWK (91% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (2620..3019): Ser
nrpys: Ser

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    N/A
  Small clusters prediction:
    ser (Ser)
  Single AA prediction:
    ser (Ser)

Stachelhaus prediction details:
  Stachelhaus sequence:
    QWTTFDVFAWEWQFINIGELNLYGPAETTVNSSG
  Nearest Stachelhaus code(s):
    Ser DVWHISLVDK (59% 8Å match)
  Stachelhaus code match:
    70% (weak)

AMP-binding (3938..4322): Cys
nrpys: Cys

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Small clusters prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)
  Single AA prediction:
    Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TDISFDLSVYDGNSMLSGDIGLGGATEGTIWSIY
  Nearest Stachelhaus code(s):
    Cys DLYNMSLIWK (88% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (4966..5359): Ala
nrpys: Ala

SVM prediction details:
  Predicted physicochemical class:
    hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
  Large clusters prediction:
    Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
  Small clusters prediction:
    Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
  Single AA prediction:
    ala (Ala)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LNDHFDVSVWEGCQIFAGEVNMYGPTETTVYATY
  Nearest Stachelhaus code(s):
    Ser DVWSIAMVHK (82% 8Å match)
  Stachelhaus code match:
    80% (moderate)

Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
GnfM | Regulator of nitrogen-fixation genes
LexA variant 2 | Repressor of DNA damage response
MexT | Global virulence regulator
MogR | Repressor of flagellar motility genes
RpoN | Regulator of nitrogen assimilation and virulence
ToxT | Regulator of MSHA biosynthesis
VqsM | Regulator of quorum-sensing signalling systems

NZ_CP033054.1 - Region 15 - other
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: 4,097,107 - 4,138,525 nt. (total: 41,419 nt) Show pHMM detection rules used
other: (Neocarzinostat or bcpB or frbD or mitE or prnB or CaiA or bacilysin or orf2_PTase)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
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
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
TFBS Finder
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region.
Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection.
Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features

Identifier | Product | Length | Function | Sequence | NCBI Blast | Filter details
--- | --- | --- | --- | --- | --- | ---
|  | NT | AA |  | NT | AA |  |

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase
D9777_RS20740: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS20760: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

D9777_RS20795: aldehyde dehydrogenase

smcogs
  SMCOG1017: aldehyde dehydrogenase

Transferases: aminotransferase transferase
D9777_RS20745: aminotransferase

smcogs
  SMCOG1019: aminotransferase

D9777_RS20845: glucose-1-phosphate adenylyl/thymidylyltransferase

smcogs
  SMCOG1064: glucose-1-phosphate adenylyl/thymidylyltransferase

Lyases: dehydratase lyase
D9777_RS20755: argininosuccinate lyase/adenylosuccinate lyase

smcogs
  SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

D9777_RS20835: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

D9777_RS20840: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

Translocases: permease
D9777_RS20650: phenylalanine-specific permease

smcogs
  SMCOG1038: phenylalanine-specific permease

D9777_RS20785: phenylalanine-specific permease

smcogs
  SMCOG1038: phenylalanine-specific permease

Similar gene clusters
Shows areas 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 | other | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001184.4 |  | 0.93 | other (other) | bacilysin | Bacillus velezensis FZB42
BGC0000888.5 |  | 0.91 | other (other) | bacilysin | Bacillus sp. CS93
BGC0000794.5 |  | 0.53 | saccharide | S-layer glycan | Geobacillus stearothermophilus
BGC0000898.5 |  | 0.53 | saccharide | desosamine, pikromycin, neomethymycin, narbomycin | Streptomyces venezuelae
BGC0000790.3 |  | 0.52 | saccharide | O-antigen | Escherichia coli
BGC0000773.3 |  | 0.52 | saccharide | lipopolysaccharide | Escherichia coli
BGC0000791.3 |  | 0.52 | saccharide | O-antigen | Cronobacter sakazakii
BGC0000813.3 |  | 0.51 | other (other) | K-252a | Nonomuraea longicatena
BGC0000899.4 |  | 0.50 | saccharide | desosamine | Streptomyces narbonensis
BGC0000768.5 |  | 0.50 | saccharide | gellan polysaccharide | Sphingomonas elodea ATCC 31461

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001184.4 |  | 0.93 | other (other) | bacilysin | Bacillus velezensis FZB42
BGC0000888.5 |  | 0.91 | other (other) | bacilysin | Bacillus sp. CS93
BGC0000794.5 |  | 0.53 | saccharide | S-layer glycan | Geobacillus stearothermophilus
BGC0000898.5 |  | 0.53 | saccharide | desosamine, pikromycin, neomethymycin, narbomycin | Streptomyces venezuelae
BGC0000790.3 |  | 0.52 | saccharide | O-antigen | Escherichia coli
BGC0000773.3 |  | 0.52 | saccharide | lipopolysaccharide | Escherichia coli
BGC0000791.3 |  | 0.52 | saccharide | O-antigen | Cronobacter sakazakii
BGC0000813.3 |  | 0.51 | other (other) | K-252a | Nonomuraea longicatena
BGC0000899.4 |  | 0.50 | saccharide | desosamine | Streptomyces narbonensis
BGC0000768.5 |  | 0.50 | saccharide | gellan polysaccharide | Sphingomonas elodea ATCC 31461

Similar known clusters from MIBiG 4.0
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.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Click on an accession to open that entry in the MIBiG database.
Location:
Identifier
Identity
Coverage
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship.
Detailed help and explanations are available here.
Click on reference genes to show details of similarities to genes within the current region.
Double click on a reference drawing to reverse the display of the genes.
Location:
Identifier
Identity
Coverage
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.04 out of 18.57
Confidence: strong
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 17.22 out of 18.46
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.67 out of 26.06
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.85 out of 27.78
Confidence: medium
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 21.03 out of 26.85
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 20.12 out of 23.79
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.49 out of 27.78
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.26 out of 29.38
Confidence: medium
Additional weak hits (6):
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.37 out of 20.01
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 25.29 out of 36.54
Confidence: weak
HgtR
Description: Hydrogen-dependent regulator
Species: Geobacter sulfurreducens PCA
Score: 26.15 out of 36.54
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.45 out of 30.25
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 21.66 out of 30.97
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 20.65 out of 26.06
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1 | Ferric Uptake Regulator
IolR | Regulator of the inositol catabolism
MogR | Repressor of flagellar motility genes
RpoN | Regulator of nitrogen assimilation and virulence
RutR | Regulator of the pyrimidine and purine metabolism
ToxT | Regulator of MSHA biosynthesis