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

NZ_CP117876.1 (Paenibacillus sp. KACC 21273)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1 | lanthipeptide-class-ii | 375,499 | 398,576 | Low | mersacidin | ribosomal:RiPP:Lanthipeptide
Region 2 | terpene | 622,159 | 643,040 | Low | carotenoid | terpene
Region 3 | terpene-precursor | 1,886,164 | 1,907,036 |  |
Region 4 | NRPS | 2,326,564 | 2,378,864 |
Region 5 | transAT-PKS,t3nrps-iterative,NI-siderophore,NRPS | 2,844,894 | 3,016,874 |  |
Region 6 | azole-containing-RiPP | 3,076,471 | 3,102,996 |
Region 7 | NRPS-like | 3,533,576 | 3,577,286 |
Region 8 | proteusin | 4,287,256 | 4,307,498 |
Region 9 | lassopeptide | 4,316,226 | 4,340,589 | Low | paeninodin | ribosomal:unmodified
Region 10 | lassopeptide | 4,635,873 | 4,658,356 |  |

NZ_CP117876.1 - Region 1 - 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: 375,499 - 398,576 nt. (total: 23,078 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
Transferases: phosphotransferase
PQ460_RS01715: Glucose-specific phosphotransferase enzyme IIA

smcogs
  SMCOG1145: Glucose-specific phosphotransferase enzyme IIA

Lyases: cyclase
PQ460_RS01730: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

PQ460_RS01775: diguanylate cyclase

smcogs
  SMCOG1025: diguanylate cyclase

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
BGC0000554.4 |  | 0.56 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001210.5 |  | 0.55 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000539.5 |  | 0.54 | ribosomal | nukacin ISK-1 | Staphylococcus warneri
BGC0000516.4 |  | 0.53 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000499.3 |  | 0.53 | ribosomal | butyrivibriocin OR79 | Butyrivibrio fibrisolvens
BGC0001787.3 |  | 0.52 | ribosomal | suicin 3908 | Streptococcus suis
BGC0000517.4 |  | 0.52 | ribosomal | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000528.5 |  | 0.52 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001555.4 |  | 0.52 | ribosomal | colicin V | Escherichia coli chi7122

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000504.5 |  | 0.57 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0000554.4 |  | 0.56 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0001210.5 |  | 0.55 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000539.5 |  | 0.54 | ribosomal | nukacin ISK-1 | Staphylococcus warneri
BGC0000516.4 |  | 0.53 | ribosomal | geobacillin II | Geobacillus thermodenitrificans
BGC0000499.3 |  | 0.53 | ribosomal | butyrivibriocin OR79 | Butyrivibrio fibrisolvens
BGC0001787.3 |  | 0.52 | ribosomal | suicin 3908 | Streptococcus suis
BGC0000517.4 |  | 0.52 | ribosomal | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000528.5 |  | 0.52 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001555.4 |  | 0.52 | ribosomal | colicin V | Escherichia coli chi7122

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.

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 PQ460_RS01730

PQ460_RS01735
Leader:
MSKVEIEALKAVNELSDEELENIAGG
Core:
G D G V V K T A T S E C Y L G T V A F I C C L G R G
Core with dehydrations:
G D G V V K Dhb A Dhb Dha E Cys Y L G Dhb V A F I Cys Cys L G R G

#### antiSMASH-DB 4.0 matches for PQ460_RS01735

100.0%
NZ_CP117876.1:
Lanthipeptides: PQ460_RS01735_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I C C L G R G
26
G D G V V K T A T S E C Y L G T V A F I C C L G R G
1
G D G V V K T A T S E C Y L G T V A F I C C L G R G
26
84.6%
NZ_CP045267.1 and 1 other:
NZ_CP045267.1 Lanthipeptides: FDZ14_RS00155_lanthipeptide
Lanthipeptides: FDZ14_RS00155_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I C C L G R
25
G D G V V K T A T S E C Y L G T A F C C L R
1
G D G V V K T A T S E C Y L G T F A F A C C L A R
25
84.6%
NZ_JAFCGV010000005.1:
Lanthipeptides: JQI09_RS04275_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I C C L G R
25
G D G V V K T A T S E C Y L G T A F+C C L R
1
G D G V V K T A T S E C Y L G T F A F V C C L A R
25
with 54 more sequence matches
Only the first 10 are displayed here.
50.0%
NZ_CAAHKQ010000003.1:
Lanthipeptides: E9664_RS02165_lanthipeptide
2
D G V V K T A T S E C Y L G T V A F--I C C
22
+G V K T + E C+L T A F I C C
3
N G V F K T I S H E C H L N T W A F L A I C C
25
50.0%
NZ_CP018188.1 and 17 others:
NZ_CP018188.1 Lanthipeptides: BSR19_RS11175_lanthipeptide NZ_CP066093.1 Lanthipeptides: I6I02_RS07300_lanthipeptide NZ_CP066093.1 Lanthipeptides: I6I02_RS07295_lanthipeptide NZ_JALDUD010000010.1 Lanthipeptides: M1G10_RS09705_lanthipeptide NZ_JALDUD010000010.1 Lanthipeptides: M1G10_RS09700_lanthipeptide NZ_JAQDVH010000019.1 Lanthipeptides: PGU04_RS09300_lanthipeptide NZ_JAQDVH010000019.1 Lanthipeptides: PGU04_RS09295_lanthipeptide NZ_JAQDVH010000019.1 Lanthipeptides: PGU04_RS09300_lanthipeptide NZ_JAQDVH010000019.1 Lanthipeptides: PGU04_RS09295_lanthipeptide NZ_JAQMJT010000006.1 Lanthipeptides: PNU26_RS06585_lanthipeptide NZ_JAQMJT010000006.1 Lanthipeptides: PNU26_RS06580_lanthipeptide NZ_JAQMJT010000006.1 Lanthipeptides: PNU26_RS06585_lanthipeptide NZ_JAQMJT010000006.1 Lanthipeptides: PNU26_RS06580_lanthipeptide NZ_KV832031.1 Lanthipeptides: HMPREF2637_RS05120_lanthipeptide NZ_KV832031.1 Lanthipeptides: HMPREF2637_RS05115_lanthipeptide NZ_PKIA01000004.1 Lanthipeptides: CYK22_RS04335_lanthipeptide NZ_PKIA01000004.1 Lanthipeptides: CYK22_RS04330_lanthipeptide
Lanthipeptides: BSR19_RS11180_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G+G V K T + E C+L T A F+ C C
1
G N G V F K T I S H E C H L N T W A F L A T C C
24
46.2%
NZ_ALSD01000046.1 and 49 others:
NZ_CAAHGW010000010.1 Lanthipeptides: E9435_RS08890_lanthipeptide NZ_CAAHHE010000002.1 Lanthipeptides: E9499_RS02935_lanthipeptide NZ_CAAHHF010000009.1 Lanthipeptides: E9478_RS08685_lanthipeptide NZ_CAAHHF010000009.1 Lanthipeptides: E9478_RS08680_lanthipeptide NZ_CAAHHN010000003.1 Lanthipeptides: E9502_RS05700_lanthipeptide NZ_CAAHHU010000009.1 Lanthipeptides: E9510_RS08730_lanthipeptide NZ_CAAHHU010000009.1 Lanthipeptides: E9510_RS08725_lanthipeptide NZ_CAAHHW010000012.1 Lanthipeptides: E9525_RS08980_lanthipeptide NZ_CAAHHW010000012.1 Lanthipeptides: E9525_RS08975_lanthipeptide NZ_CAAHIB010000001.1 Lanthipeptides: E9539_RS01070_lanthipeptide NZ_CAAHIV010000024.1 Lanthipeptides: E9612_RS09265_lanthipeptide NZ_CAAHIV010000024.1 Lanthipeptides: E9612_RS09260_lanthipeptide NZ_CAAHKK010000019.1 Lanthipeptides: E9649_RS08765_lanthipeptide NZ_CAAHKK010000019.1 Lanthipeptides: E9649_RS08760_lanthipeptide NZ_CAAHKP010000014.1 Lanthipeptides: E9652_RS08915_lanthipeptide NZ_CAAHKP010000014.1 Lanthipeptides: E9652_RS08910_lanthipeptide NZ_CAAHKQ010000003.1 Lanthipeptides: E9664_RS02170_lanthipeptide NZ_CAAHKY010000014.1 Lanthipeptides: E9668_RS09655_lanthipeptide NZ_CAAHLP010000002.1 Lanthipeptides: E9684_RS03455_lanthipeptide NZ_CAAHLP010000002.1 Lanthipeptides: E9684_RS03450_lanthipeptide NZ_CAAHQE010000012.1 Lanthipeptides: E9931_RS08825_lanthipeptide NZ_CAAHQE010000012.1 Lanthipeptides: E9931_RS08820_lanthipeptide NZ_CAAHRY010000002.1 Lanthipeptides: E9986_RS03170_lanthipeptide NZ_CAAIES010000002.1 Lanthipeptides: FAH15_RS02470_lanthipeptide NZ_CAAIIA010000012.1 Lanthipeptides: FAH55_RS08470_lanthipeptide NZ_CAAIIA010000012.1 Lanthipeptides: FAH55_RS08465_lanthipeptide NZ_CAAIJM010000015.1 Lanthipeptides: FAI23_RS09580_lanthipeptide NZ_CAAINV010000013.1 Lanthipeptides: FAI86_RS09035_lanthipeptide NZ_CAAINV010000013.1 Lanthipeptides: FAI86_RS09030_lanthipeptide NZ_CAAIRS010000012.1 Lanthipeptides: FAK24_RS08495_lanthipeptide NZ_CAAIRS010000012.1 Lanthipeptides: FAK24_RS08490_lanthipeptide NZ_CAAJFI010000013.1 Lanthipeptides: FAP60_RS08505_lanthipeptide NZ_CAAJFI010000013.1 Lanthipeptides: FAP60_RS08500_lanthipeptide NZ_CAJHJS010000009.1 Lanthipeptides: JMX87_RS06790_lanthipeptide NZ_CAJHJS010000009.1 Lanthipeptides: JMX87_RS06785_lanthipeptide NZ_CM001076.1 Lanthipeptides: SDD27957_RS04310_lanthipeptide NZ_CM001076.1 Lanthipeptides: SDD27957_RS04305_lanthipeptide NZ_CP035426.1 Lanthipeptides: ETT73_RS02595_lanthipeptide NZ_CP035426.1 Lanthipeptides: ETT73_RS02590_lanthipeptide NZ_CP035428.1 Lanthipeptides: ETT71_RS02815_lanthipeptide NZ_CP035437.1 Lanthipeptides: ETT62_RS06680_lanthipeptide NZ_CP035437.1 Lanthipeptides: ETT62_RS06675_lanthipeptide NZ_CP035443.1 Lanthipeptides: ETT56_RS07265_lanthipeptide NZ_GL636070.1 Lanthipeptides: HMPREF9171_RS105315_lanthipeptide NZ_LR793258.1 Lanthipeptides: HV369_RS03145_lanthipeptide NZ_LR793258.1 Lanthipeptides: HV369_RS03140_lanthipeptide NZ_LS483425.1 Lanthipeptides: DQN36_RS06755_lanthipeptide NZ_LS483425.1 Lanthipeptides: DQN36_RS06750_lanthipeptide NZ_LT545678.1 Lanthipeptides: BJR96_RS07040_lanthipeptide
Lanthipeptides: SAG0161_RS120605_lanthipeptide
2
D G V V K T A T S E C Y L G T V A F I--C C
22
+G V K T + E C+L T A F+ C C
3
N G V F K T I S H E C H L N T W A F L A T C C
25
46.2%
NZ_CP083176.1 and 4 others:
NZ_JABUHD010000002.1 Lanthipeptides: HRR08_RS05415_lanthipeptide NZ_LSLF01000001.1 Lanthipeptides: AXE72_RS04025_lanthipeptide NZ_PNHB01000001.1 Lanthipeptides: CJ210_RS02800_lanthipeptide NZ_QJVA01000001.1 Lanthipeptides: D0T19_RS02755_lanthipeptide
Lanthipeptides: K9E37_RS06280_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G D G V+ T T E C++ T F+ C C
1
G D G V M H T L T H E C H M N T W Q F L L T C C
24
46.2%
NZ_FOZB01000002.1:
Lanthipeptides: BM306_RS07850_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G D G V +T + E C++ T F I C C
1
G D G V F R T I S H E C H M N T W M F I F T C C
24
46.2%
NZ_GL985606.1:
Lanthipeptides: HMPREF9062_RS00700_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G+G V T + E C Y + A F I C C
1
G N G V F H T I S H E C Y Y N S W A F I F T C C
24
46.2%
NZ_LT732526.1 and 1 other:
NZ_LT732526.1 Lanthipeptides: BQ9856_RS23075_lanthipeptide
Lanthipeptides: BQ9856_RS23080_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G+G V+K T + E C + T F I C C
1
G N G V I K T I S H E C A M N T W Q F I F T C C
24
46.2%
NZ_MSRJ01000005.1:
Lanthipeptides: BKH06_RS03750_lanthipeptide
1
G D G V V K T A T S E C Y L G T--V A F I C C
22
G+G V T T E C + V A F C C
1
G N G V F Y T F T H E C N T N S F Y V A F T C C
24
46.2%
NZ_QTVL01000002.1 and 5 others:
NZ_QTVL01000002.1 Lanthipeptides: DWZ44_RS04150_lanthipeptide NZ_QTZB01000015.1 Lanthipeptides: DXC15_RS14340_lanthipeptide NZ_QTZB01000015.1 Lanthipeptides: DXC15_RS14335_lanthipeptide NZ_QUKU01000003.1 Lanthipeptides: DXC27_RS02940_lanthipeptide NZ_QUKU01000003.1 Lanthipeptides: DXC27_RS02935_lanthipeptide
Lanthipeptides: DWZ44_RS04155_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G D G V +T + E C + T F I C C
1
G D G V F R T I S H E C N M N T W Q F I F T C C
24
44.4%
NZ_CP037940.1:
Lanthipeptides: EQG49_RS07315_lanthipeptide
1
G D G V V K T A T S E C Y L G T V A F I--C C
22
G G V+K T T E C + T I C C
4
G S G V I K T L T H E C K M N T Y Q A I L T C C
27

#### MIBiG 4.0 matches for PQ460_RS01735

19.2%
BGC0001802.5 (ATJ00792.1):
Thioamidide: thioholgamide A or thioholgamide B
15
G T V A F I C
21
T V A F C
7
A T V A F H C
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:
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 23.24 out of 29.25
Confidence: medium
Additional weak hits (1):
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 23.71 out of 30.97
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.

PQ460_RS01735 - Class II
  Cleavage pHMM score: 5.50
  RODEO score: 0
  Monoisotopic mass: 2547.2 Da
  Molecular weight: 2548.9 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2567.0 Da N = 1

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
SypG | Regulator of biofilm formation and host colonization

NZ_CP117876.1 - Region 2 - 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: 622,159 - 643,040 nt. (total: 20,882 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
PQ460_RS02835: dehydrogenase

smcogs
  SMCOG1222: dehydrogenase

PQ460_RS02840: dehydrogenase

smcogs
  SMCOG1222: dehydrogenase

PQ460_RS02865: dehydrogenase

smcogs
  SMCOG1222: dehydrogenase

Transferases: acyltransferase kinase
PQ460_RS02800: PfkB domain protein

smcogs
  SMCOG1276: PfkB domain protein

PQ460_RS02855: acyltransferase

smcogs
  SMCOG1141: acyltransferase

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
--- | --- | --- | --- | --- | ---
BGC0000647.3 |  | 0.57 | terpene | carotenoid | Rhodobacter sphaeroides
BGC0000645.3 |  | 0.51 | terpene | carotenoid | Halobacillus halophilus DSM 2266
BGC0000640.3 |  | 0.45 | terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000642.3 |  | 0.43 | terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000635.3 |  | 0.42 | terpene | carotenoid | Paracoccus sp. N81106
BGC0000646.5 |  | 0.41 | terpene | β-carotein | uncultured bacterium
BGC0000664.5 |  | 0.41 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000630.3 |  | 0.41 | terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000639.3 |  | 0.40 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000634.3 |  | 0.40 | terpene | carotenoid | Brevundimonas sp. SD212

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000647.3 |  | 0.57 | terpene | carotenoid | Rhodobacter sphaeroides
BGC0000645.3 |  | 0.51 | terpene | carotenoid | Halobacillus halophilus DSM 2266
BGC0000640.3 |  | 0.45 | terpene | carotenoid | Enterobacteriaceae bacterium DC404
BGC0000642.3 |  | 0.43 | terpene | carotenoid | Enterobacteriaceae bacterium DC413
BGC0000635.3 |  | 0.42 | terpene | carotenoid | Paracoccus sp. N81106
BGC0000646.5 |  | 0.41 | terpene | β-carotein | uncultured bacterium
BGC0000664.5 |  | 0.41 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000630.3 |  | 0.41 | terpene | (2R,3S,3'S)-2-hydroxyastaxanthin | Paracoccus haeundaensis
BGC0000639.3 |  | 0.40 | terpene | carotenoid | Enterobacteriaceae bacterium DC260
BGC0000634.3 |  | 0.40 | terpene | carotenoid | Brevundimonas sp. SD212

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
--- | --- | --- | --- | --- | ---
triterpene |  | squalene | C30 | acyclic | none
triterpene | C30 carotenoid | diapophytoene | C30 | acyclic | none
triterpene |  | PSPP | C30 | acyclic | PP
tetraterpene | C40 carotenoid | phytoene | C40 | acyclic | none
triterpene |  | hydroxysqualene | C30 | acyclic | OH

Genes with terpene domains:
PQ460_RS02845: PT_phytoene_like
Domain 1 (10 - 279): Prenyltransferase; Phytoene synthase like
Subtype: unknown

Reactions:
  FPP → squalene
  FPP → diapophytoene
  FPP → PSPP
  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:
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 25.98 out of 27.78
Confidence: strong
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 24.47 out of 28.19
Confidence: strong
Additional weak hits (1):
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.08 out of 29.38
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
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
ZuR variant 1 | Zinc-responsive repressor

NZ_CP117876.1 - Region 3 - 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: 1,886,164 - 1,907,036 nt. (total: 20,873 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: acetyltransferase carboxylase
PQ460_RS08560: acetyl-CoA carboxylase biotin carboxylase

smcogs
  SMCOG1090: acetyl-CoA carboxylase biotin carboxylase

PQ460_RS08640: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

Ligases: synthase synthetase
PQ460_RS08600: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

PQ460_RS08605: 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 | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002284.3 |  | 0.40 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000665.5 |  | 0.39 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0001594.3 |  | 0.38 | other (other) | fischerindole L | Fischerella muscicola UTEX 1829
BGC0000234.5 |  | 0.38 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0000663.5 |  | 0.38 | terpene | hopene | Streptomyces coelicolor A3(2)

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0002284.3 |  | 0.40 | other (other) | corynecin III, corynecin I, corynecin II | Rhodococcus sp. H-CA8f
BGC0000665.5 |  | 0.39 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0001594.3 |  | 0.38 | other (other) | fischerindole L | Fischerella muscicola UTEX 1829
BGC0000234.5 |  | 0.38 | PKS | jadomycin | Streptomyces venezuelae ATCC 10712
BGC0000663.5 |  | 0.38 | terpene | hopene | Streptomyces coelicolor A3(2)

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

Genes with terpene domains:
PQ460_RS08600: PT_FPPS_like
Domain 1 (26 - 290): 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:
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.28 out of 27.55
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.68 out of 24.78
Confidence: medium
Additional weak hits (7):
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.70 out of 21.55
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.68 out of 26.12
Confidence: weak
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.62 out of 21.55
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.78 out of 20.01
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.39 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.82 out of 28.14
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.39 out of 28.14
Confidence: weak
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
--- | ---
GnfM | Regulator of nitrogen-fixation genes
LexA variant 2 | Repressor of DNA damage response

NZ_CP117876.1 - Region 4 - 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: 2,326,564 - 2,378,864 nt. (total: 52,301 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
Transferases: kinase
PQ460_RS10655: PfkB domain protein

smcogs
  SMCOG1276: PfkB domain protein

Ligases: ligase
PQ460_RS10625: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

PQ460_RS10630: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

Translocases: transporter
PQ460_RS10560: sugar-binding lipoprotein

smcogs
  SMCOG1143: sugar-binding lipoprotein

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
--- | --- | --- | --- | --- | ---
BGC0000426.5 |  | 0.66 | NRPS | sevadicin | Paenibacillus larvae
BGC0001261.3 |  | 0.66 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  | 0.65 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.65 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.4 |  | 0.64 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.64 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001240.4 |  | 0.64 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0002135.2 |  | 0.64 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0002286.3 |  | 0.63 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000342.4 |  | 0.63 | NRPS | enniatin | Fusarium equiseti

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000426.5 |  | 0.66 | NRPS | sevadicin | Paenibacillus larvae
BGC0001261.3 |  | 0.66 | NRPS | AM-toxin | Alternaria alternata
BGC0001135.5 |  | 0.65 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001132.4 |  | 0.65 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001128.4 |  | 0.64 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000307.4 |  | 0.64 | NRPS | AbT1 | Aureobasidium pullulans
BGC0001240.4 |  | 0.64 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0002135.2 |  | 0.64 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0002286.3 |  | 0.63 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000342.4 |  | 0.63 | NRPS | enniatin | Fusarium equiseti

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: 23.85 out of 27.78
Confidence: medium
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.74 out of 28.14
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 24.10 out of 24.78
Confidence: strong
Additional weak hits (7):
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 22.01 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 21.70 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 18.74 out of 30.11
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 23.52 out of 33.73
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.68 out of 26.12
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.88 out of 26.12
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 4, location 2326563 - 2378864:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Gly - D-Leu) + (X)

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).
PQ460_RS10625: Gly - Leu
Search NORINE for peptide: strict or relaxed
AMP-binding (748..1030): 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:
    FGMTFDISILELQSLIGGEYNMYGPTETTVWTSV
  Nearest Stachelhaus code(s):
    Gly DILQLGMVWK (79% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1664..2048): 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:
    LWHAFDASIWEPWLLTGGDFNTYGPTENTVICTQ
  Nearest Stachelhaus code(s):
    Leu DAWFLGNVVK (82% 8Å match)
  Stachelhaus code match:
    70% (weak)

PQ460_RS10630: X
A-OX (488..1242): X
No predictions made
Link to PARAS substrate predictor
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
LexA variant 2 | Repressor of DNA damage response
PerR | Peroxide regulator

NZ_CP117876.1 - Region 5 - NI-siderophore,NRPS,t3nrps-iterative,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: 2,844,894 - 3,016,874 nt. (total: 171,981 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)))
t3nrps-iterative: (AMP-binding and PP-binding and (DUF98 or Orn_Arg_deC_N or Orn_DAP_Arg_deC) and not ATP-grasp)
NI-siderophore: IucA_IucC
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 oxidoreductase oxygenase
PQ460_RS12745: oxidoreductase

smcogs
  SMCOG1079: oxidoreductase

PQ460_RS12815: cytochrome P450

smcogs
  SMCOG1007: cytochrome P450

PQ460_RS12830: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

PQ460_RS12835: alcohol dehydrogenase

smcogs
  SMCOG1040: alcohol dehydrogenase

PQ460_RS12850: monooxygenase FAD-binding

smcogs
  SMCOG1050: monooxygenase FAD-binding

PQ460_RS12885: short-chain dehydrogenase/reductase SDR

smcogs
  SMCOG1001: short-chain dehydrogenase/reductase SDR

Transferases: acylase aminotransferase glycosyltransferase methyltransferase phosphotransferase sulfhydrylase
PQ460_RS12760: glycosyltransferase, MGT family

smcogs
  SMCOG1062: glycosyltransferase, MGT family

PQ460_RS12820: isoprenylcysteine carboxyl methyltransferase

smcogs
  SMCOG1150: isoprenylcysteine carboxyl methyltransferase

PQ460_RS12855: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

PQ460_RS12990: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

PQ460_RS13050: malonyl CoA-acyl carrier protein transacylase

smcogs
  SMCOG1021: malonyl CoA-acyl carrier protein transacylase

PQ460_RS13055: aminotransferase class-III

smcogs
  SMCOG1013: aminotransferase class-III

PQ460_RS13105: O-succinylhomoserine sulfhydrylase

smcogs
  SMCOG1168: O-succinylhomoserine sulfhydrylase

PQ460_RS13120: Glucose-specific phosphotransferase enzyme IIA

smcogs
  SMCOG1145: Glucose-specific phosphotransferase enzyme IIA

Hydrolases: glucosidase hydrolase
PQ460_RS12775: beta-lactamase

smcogs
  SMCOG1053: beta-lactamase

PQ460_RS12805: alpha/beta hydrolase domain-containing protein

smcogs
  SMCOG1066: alpha/beta hydrolase domain-containing protein

PQ460_RS13125: Alpha-glucosidase

smcogs
  SMCOG1257: Alpha-glucosidase

Lyases: cyclase decarboxylase dehydratase
PQ460_RS12765: NAD-dependent epimerase/dehydratase

smcogs
  SMCOG1010: NAD-dependent epimerase/dehydratase

PQ460_RS12880: diguanylate cyclase

smcogs
  SMCOG1025: diguanylate cyclase

PQ460_RS12915: diguanylate cyclase

smcogs
  SMCOG1025: diguanylate cyclase

PQ460_RS12965: diaminopimelate decarboxylase

smcogs
  SMCOG1264: diaminopimelate decarboxylase

Ligases: ligase synthase
PQ460_RS12825: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

PQ460_RS12840: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

PQ460_RS12845: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

PQ460_RS12895: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

PQ460_RS13030: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

PQ460_RS13035: condensation domain-containing protein

smcogs
  SMCOG1127: condensation domain-containing protein

PQ460_RS13040: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

PQ460_RS13045: Beta-ketoacyl synthase

smcogs
  SMCOG1022: Beta-ketoacyl synthase

PQ460_RS13110: cysteine synthase

smcogs
  SMCOG1081: cysteine 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 | t3nrps-iterative | NI-siderophore | NRPS | transAT-PKS | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | --- | --- | --- | ---
BGC0002135.2 |  |  |  |  |  | 1.30 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001135.5 |  |  |  |  |  | 1.20 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0001833.4 |  |  |  |  |  | 1.16 | NRPS | icosalide A, icosalide B | Burkholderia gladioli
BGC0001166.5 |  |  |  |  |  | 1.12 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001261.3 |  |  |  |  |  | 1.10 | NRPS | AM-toxin | Alternaria alternata
BGC0001758.4 |  |  |  |  |  | 1.10 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001128.4 |  |  |  |  |  | 1.08 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  |  |  |  |  | 1.07 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000402.4 |  |  |  |  |  | 1.07 | NRPS | paenilarvin A, paenilarvin B, paenilarvin C | Paenibacillus larvae subsp. larvae DSM 25430
BGC0000342.4 |  |  |  |  |  | 1.06 | NRPS | enniatin | Fusarium equiseti

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.74 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001833.4 |  | 0.73 | 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
BGC0001128.4 |  | 0.71 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0002286.3 |  | 0.71 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001825.4 |  | 0.70 | NRPS | xenematide | Xenorhabdus nematophila AN6/1
BGC0001166.5 |  | 0.70 | NRPS | HC-toxin | Alternaria jesenskae
BGC0001132.4 |  | 0.70 | NRPS | xenotetrapeptide | Xenorhabdus nematophila ATCC 19061
BGC0001261.3 |  | 0.69 | NRPS | AM-toxin | Alternaria alternata

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:
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.98 out of 20.97
Confidence: strong
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 19.86 out of 21.84
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.57 out of 26.06
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.82 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.53 out of 29.38
Confidence: strong
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.40 out of 19.26
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.19 out of 27.78
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.27 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.99 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.60 out of 29.38
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 25.54 out of 29.38
Confidence: medium
ANR
Description: Anaerobic transcriptional regulator
Species: Pseudomonas putida KT2440
Score: 21.93 out of 26.33
Confidence: medium
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 22.05 out of 22.40
Confidence: strong
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 26.44 out of 28.19
Confidence: strong
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.73 out of 28.19
Confidence: medium
Additional weak hits (12):
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.76 out of 31.73
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 24.31 out of 30.97
Confidence: weak
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: 24.31 out of 32.74
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 24.27 out of 32.74
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.56 out of 32.74
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.08 out of 29.38
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 25.99 out of 32.74
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 19.14 out of 22.40
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.81 out of 33.14
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
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 2844893 - 3016874:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (fatty_acid - mal - D-Gly) + (Dab - D-Ser) + (Ser - Gly) + (X - Val) + (Me-ccmal) + (Me-ccmal) + (ccmal - Me-ccmal - ccmal) + (ccmal - ohmal - 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).
PQ460_RS12855: mal - mal
PKS_AT (7..290): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 28.2
  Methoxymalonyl-CoA: 11.3
  inactive: 8.8
  trans-1,2-CPDA: 0.0
  fatty_acid: 0.0
  Propionyl-CoA: 0.0
  Methylmalonyl-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

PKS_AT (341..618): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 75.0%
  inactive: 66.7%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 104.0
  inactive: 36.8
  Methoxymalonyl-CoA: 29.8
  Methylmalonyl-CoA: 23.4
  Propionyl-CoA: 14.6
  fatty_acid: 11.3
  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

PQ460_RS12895: X
AMP-binding (3..409): X
nrpys: Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr

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:
    HITAWQKWIWSSCCVSAGERDGYGQTESTLLIGN
  Nearest Stachelhaus code(s):
    Tyr HAMCVAGGLK (56% 8Å match)
  Stachelhaus code match:
    60% (weak)

PQ460_RS13030: X - Val
Search NORINE for peptide: strict or relaxed
AMP-binding (508..900): X
nrpys: (unknown)

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:
    Unpolar aromatic ring (Phe, Trp)
  Single AA prediction:
    N/A

Stachelhaus prediction details:
  Stachelhaus sequence:
    MTYAFDASVWEMMLITGGSCNAYGPTEATICVSI
  Nearest Stachelhaus code(s):
    Leu DAWLIGAICK (68% 8Å match)
  Stachelhaus code match:
    90% (moderate)

AMP-binding (1554..1949): 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:
    LETGFDACTFEGWLIIGGDINGYGPTENTTFSCC
  Nearest Stachelhaus code(s):
    Val DAFWIGGTFK (85% 8Å match)
  Stachelhaus code match:
    100% (strong)

PQ460_RS13035: Ser - Gly
Search NORINE for peptide: strict or relaxed
AMP-binding (474..881): 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 (1532..1950): 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:
    FAMTFDIFVLEVQMLIGGEYNMYGPTETTVWSAI
  Nearest Stachelhaus code(s):
    Gly DILQLGMVWK (79% 8Å match)
  Stachelhaus code match:
    100% (strong)

PQ460_RS13040: Dab - Ser
Search NORINE for peptide: strict or relaxed
AMP-binding (474..882): Dab
nrpys: Dab

SVM prediction details:
  Predicted physicochemical class:
    hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
  Large clusters prediction:
    Long positively charged side chain (Orn, Lys, Arg)
  Small clusters prediction:
    Orn and hydroxy-Orn specific (Orn, OH-Orn)
  Single AA prediction:
    orn (Orn)

Stachelhaus prediction details:
  Stachelhaus sequence:
    TGYAFDVFAGDRESITSSDMNSYGVTEAAIDSSF
  Nearest Stachelhaus code(s):
    Dab DVGEISSIDK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

AMP-binding (1522..1925): 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)

PQ460_RS13045: fatty_acid - Gly
Search NORINE for peptide: strict or relaxed
CAL_domain (34..479): fatty_acid
minowa: fatty_acid

Prediction, score:
  fatty_acid: 234.9
  NH2: 18.2
  shikimic_acid: 0.0
  Acetyl-CoA: 0.0
  AHBA: 0.0

AMP-binding (3195..3588): 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:
    FGMTFDIFVLELQMMVGGEFNMYGPTETTVWSAV
  Nearest Stachelhaus code(s):
    Gly DILQMGMVWK (94% 8Å match)
  Stachelhaus code match:
    100% (strong)

PQ460_RS13050: mal
PKS_AT (6..292): mal
ATSignature: Malonyl-CoA

Top 3 matches:
  Malonyl-CoA: 75.0%
  inactive: 66.7%

minowa: Malonyl-CoA

Prediction, score:
  Malonyl-CoA: 85.5
  inactive: 44.9
  Methoxymalonyl-CoA: 29.6
  Methylmalonyl-CoA: 26.9
  Propionyl-CoA: 12.7
  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

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

Regulator | Description
--- | ---
ANR | Anaerobic transcriptional regulator
CRP | Cyclic AMP receptor protein
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1 | Ferric Uptake Regulator
HypR | L-hydroxyproline utilization repressor
MexT | Global virulence regulator
MogR | Repressor of flagellar motility genes
ZuR variant 1 | Zinc-responsive repressor

NZ_CP117876.1 - Region 6 - azole-containing-RiPP
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: 3,076,471 - 3,102,996 nt. (total: 26,526 nt) Show pHMM detection rules used
azole-containing-RiPP: ((YcaO or TIGR03604) and (((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or (PF06968 or PF04055 or PF07366)) or (goadsporin_like or PF00881 or TIGR03605)) or TIGR03882 or TIGR03603 or thiostrepton or TIGR03602)

#### 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
Azole RiPPs
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
PQ460_RS13410: dehydrogenase

smcogs
  SMCOG1072: dehydrogenase

Lyases: dehydratase
PQ460_RS13440: Lantibiotic dehydratase domain protein

smcogs
  SMCOG1155: Lantibiotic dehydratase 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 | azole-containing-RiPP | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000515.4 |  | 0.39 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0000549.3 |  | 0.35 | ribosomal | salivaricin D | Streptococcus salivarius
BGC0001701.4 |  | 0.33 | ribosomal | nisin O | Blautia obeum
BGC0000612.4 |  | 0.31 | ribosomal | thiocillin I | Bacillus cereus ATCC 14579
BGC0001860.4 |  | 0.31 | ribosomal | thiomuracin | Thermobispora bispora DSM 43833
BGC0001636.4 |  | 0.30 | NRPS | KK-1 | Curvularia clavata
BGC0001705.4 |  | 0.28 | NRPS, PKS | nodularin | Nostoc sp. CENA543
BGC0001667.4 |  | 0.27 | NRPS, PKS | microcystin-LR, microcystin-FR, microcystin-LA, microcystin-LAba, microcystin-LM, microcystin-LV, microcystin-LL | Fischerella sp. CENA161
BGC0002297.2 |  | 0.27 | NRPS, PKS | MC-LR, MC-LHty, MC-HphHty, MC-LHph, MC-HphHph | Phormidium sp. LP904c
BGC0001016.5 |  | 0.27 | NRPS, PKS | microcystin | Anabaena sp. 90

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000515.4 |  | 0.39 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0000549.3 |  | 0.35 | ribosomal | salivaricin D | Streptococcus salivarius
BGC0001701.4 |  | 0.33 | ribosomal | nisin O | Blautia obeum
BGC0000612.4 |  | 0.31 | ribosomal | thiocillin I | Bacillus cereus ATCC 14579
BGC0001860.4 |  | 0.31 | ribosomal | thiomuracin | Thermobispora bispora DSM 43833
BGC0001636.4 |  | 0.30 | NRPS | KK-1 | Curvularia clavata
BGC0001705.4 |  | 0.28 | NRPS, PKS | nodularin | Nostoc sp. CENA543
BGC0001667.4 |  | 0.27 | NRPS, PKS | microcystin-LR, microcystin-FR, microcystin-LA, microcystin-LAba, microcystin-LM, microcystin-LV, microcystin-LL | Fischerella sp. CENA161
BGC0002297.2 |  | 0.27 | NRPS, PKS | MC-LR, MC-LHty, MC-HphHty, MC-LHph, MC-HphHph | Phormidium sp. LP904c
BGC0001016.5 |  | 0.27 | NRPS, PKS | microcystin | Anabaena sp. 90

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:
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 23.70 out of 29.25
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 29.38 out of 29.38
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.03 out of 26.06
Confidence: strong
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: 23.68 out of 29.38
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 23.23 out of 26.06
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 22.98 out of 28.19
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 15.96 out of 18.16
Confidence: strong
Additional weak hits (5):
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.12 out of 32.74
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 23.61 out of 32.74
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 19.79 out of 30.22
Confidence: weak
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 24.15 out of 31.73
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 19.93 out of 24.78
Confidence: weak
(Thi)azol(in)e containing peptide predictions
Lists the possible core peptides for each biosynthetic enzyme. Predicted tail sequences are also shown, if present.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.
No core peptides found.
TFBS Finder
Azole RiPPs
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
FuR variant 1 | Ferric Uptake Regulator
MogR | Repressor of flagellar motility genes
SypG | Regulator of biofilm formation and host colonization
ZuR variant 1 | Zinc-responsive repressor

Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists its possible molecular weights and the scores for cleavage site prediction and RODEO. If relevant, other features, such as macrocycle and amidation, will also be listed.
No core peptides found.
NZ_CP117876.1 - Region 7 - NRPS-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: 3,533,576 - 3,577,286 nt. (total: 43,711 nt) Show pHMM detection rules used
NRPS-like: cds((PP-binding or NAD_binding_4) 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
Hydrolases: hydrolase peptidase protease
PQ460_RS15460: amidohydrolase

smcogs
  SMCOG1244: amidohydrolase

PQ460_RS15500: alkaline serine protease, subtilase family

smcogs
  SMCOG1075: alkaline serine protease, subtilase family

PQ460_RS15555: methionine aminopeptidase

smcogs
  SMCOG1172: methionine aminopeptidase

Lyases: lyase
PQ460_RS15510: argininosuccinate lyase/adenylosuccinate lyase

smcogs
  SMCOG1063: argininosuccinate lyase/adenylosuccinate lyase

Ligases: ligase
PQ460_RS15495: 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-like | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.61 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001135.5 |  | 0.61 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002164.2 |  | 0.60 | NRPS | peramine | Epichloe festucae
BGC0001261.3 |  | 0.60 | NRPS | AM-toxin | Alternaria alternata
BGC0000307.4 |  | 0.60 | NRPS | AbT1 | Aureobasidium pullulans
BGC0002286.3 |  | 0.60 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4 |  | 0.59 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001240.4 |  | 0.59 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0001128.4 |  | 0.59 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4 |  | 0.59 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002135.2 |  | 0.61 | NRPS | bovienimide A | Xenorhabdus bovienii SS-2004
BGC0001135.5 |  | 0.61 | NRPS | bicornutin A1, bicornutin A2 | Xenorhabdus budapestensis
BGC0002164.2 |  | 0.60 | NRPS | peramine | Epichloe festucae
BGC0001261.3 |  | 0.60 | NRPS | AM-toxin | Alternaria alternata
BGC0000307.4 |  | 0.60 | NRPS | AbT1 | Aureobasidium pullulans
BGC0002286.3 |  | 0.60 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001758.4 |  | 0.59 | NRPS | rhizomide A, rhizomide B, rhizomide C | Paraburkholderia rhizoxinica HKI 454
BGC0001240.4 |  | 0.59 | NRPS | serinocyclin A, serinocyclin B | Metarhizium robertsii
BGC0001128.4 |  | 0.59 | NRPS | gamexpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4 |  | 0.59 | 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.

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:
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.40 out of 23.79
Confidence: medium
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 28.57 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 26.81 out of 29.38
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 23.84 out of 29.38
Confidence: medium
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 23.44 out of 29.25
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.95 out of 28.19
Confidence: medium
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 23.04 out of 27.18
Confidence: medium
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.68 out of 28.14
Confidence: medium
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.68 out of 28.14
Confidence: medium
Additional weak hits (5):
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 24.50 out of 28.14
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.85 out of 39.62
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.70 out of 28.14
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.30 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 7, location 3533575 - 3577286:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:
  (Phe)

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).
PQ460_RS15495: Phe
Search NORINE for peptide: strict or relaxed
AMP-binding (224..636): Phe
nrpys: Phe

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:
    Unpolar aromatic ring (Phe, Trp)
  Single AA prediction:
    phe (Phe)

Stachelhaus prediction details:
  Stachelhaus sequence:
    LILAFDGSVWEATLAAAGEVNAYGPTECTVCATM
  Nearest Stachelhaus code(s):
    Phe DAWTVAAVCK (76% 8Å match)
  Stachelhaus code match:
    80% (moderate)

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

Regulator | Description
--- | ---
FuR variant 1 | Ferric Uptake Regulator
IolR | Regulator of the inositol catabolism
NrdR | Represses ribonucleotide reductase encoding genes
PerR | Peroxide regulator
SypG | Regulator of biofilm formation and host colonization
ZuR variant 1 | Zinc-responsive repressor

NZ_CP117876.1 - Region 8 - proteusin
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: 4,287,256 - 4,307,498 nt. (total: 20,243 nt) Show pHMM detection rules used
proteusin: (PoyD or TIGR03793)

#### 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
No tailoring functions detected.
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 | proteusin | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000563.4 |  | 0.42 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0001226.4 |  | 0.42 | ribosomal | streptocollin | Streptomyces collinus Tu 365
BGC0000486.4 |  | 0.41 | ribosomal | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0000528.5 |  | 0.41 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001787.3 |  | 0.37 | ribosomal | suicin 3908 | Streptococcus suis
BGC0001210.5 |  | 0.37 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.37 | ribosomal | thuricin | Bacillus thuringiensis
BGC0000498.5 |  | 0.36 | ribosomal | bovicin HJ50 | Streptococcus equinus
BGC0000561.5 |  | 0.36 | ribosomal | thermophilin 1277 | Streptococcus thermophilus
BGC0000502.5 |  | 0.34 | ribosomal | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000563.4 |  | 0.42 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0001226.4 |  | 0.42 | ribosomal | streptocollin | Streptomyces collinus Tu 365
BGC0000486.4 |  | 0.41 | ribosomal | butyrivibriocin AR10 | Butyrivibrio fibrisolvens
BGC0000528.5 |  | 0.41 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382
BGC0001787.3 |  | 0.37 | ribosomal | suicin 3908 | Streptococcus suis
BGC0001210.5 |  | 0.37 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.37 | ribosomal | thuricin | Bacillus thuringiensis
BGC0000498.5 |  | 0.36 | ribosomal | bovicin HJ50 | Streptococcus equinus
BGC0000561.5 |  | 0.36 | ribosomal | thermophilin 1277 | Streptococcus thermophilus
BGC0000502.5 |  | 0.34 | ribosomal | cerecidin, cerecidin A1, cerecidin A2, cerecidin A3, cerecidin A4, cerecidin A5, cerecidin A6, cerecidin A7 | Bacillus cereus

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:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.64 out of 26.06
Confidence: medium
AbrC3
Description: Antibiotic production activator
Species: Streptomyces coelicolor
Score: 16.60 out of 18.16
Confidence: strong
Additional weak hits (1):
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.79 out of 33.14
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AbrC3 | Antibiotic production activator
MogR | Repressor of flagellar motility genes

NZ_CP117876.1 - Region 9 - lassopeptide
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 4,316,226 - 4,340,589 nt. (total: 24,364 nt) Show pHMM detection rules used
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
Lasso peptides
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
PQ460_RS19055: aldo/keto reductase family oxidoreductase

smcogs
  SMCOG1039: aldo/keto reductase family oxidoreductase

Hydrolases: hydrolase
PQ460_RS19035: 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 | lassopeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001356.4 |  | 0.67 | ribosomal | paeninodin | Paenibacillus dendritiformis C454
BGC0002150.2 |  | 0.55 | ribosomal | triculamin | Streptomyces triculaminicus
BGC0002151.2 |  | 0.55 | ribosomal | alboverticillin | Streptomyces griseocarneus
BGC0001634.3 |  | 0.53 | ribosomal | keywimysin | Streptomyces sp. NRRL F-5702
BGC0002312.2 |  | 0.52 | ribosomal | ubonodin | Burkholderia ubonensis
BGC0002298.2 |  | 0.51 | ribosomal | lassomycin-like peptide | Sanguibacter keddieii DSM 10542
BGC0000571.3 |  | 0.51 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0002322.3 |  | 0.48 | ribosomal | citrocin | Citrobacter pasteurii
BGC0001639.3 |  | 0.46 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0002064.2 |  | 0.46 | ribosomal | felipeptin A2, felipeptin A1 | Amycolatopsis sp. YIM 10

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001356.4 |  | 0.67 | ribosomal | paeninodin | Paenibacillus dendritiformis C454
BGC0002150.2 |  | 0.55 | ribosomal | triculamin | Streptomyces triculaminicus
BGC0002151.2 |  | 0.55 | ribosomal | alboverticillin | Streptomyces griseocarneus
BGC0001634.3 |  | 0.53 | ribosomal | keywimysin | Streptomyces sp. NRRL F-5702
BGC0002312.2 |  | 0.52 | ribosomal | ubonodin | Burkholderia ubonensis
BGC0002298.2 |  | 0.51 | ribosomal | lassomycin-like peptide | Sanguibacter keddieii DSM 10542
BGC0000571.3 |  | 0.51 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0002322.3 |  | 0.48 | ribosomal | citrocin | Citrobacter pasteurii
BGC0001639.3 |  | 0.46 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0002064.2 |  | 0.46 | ribosomal | felipeptin A2, felipeptin A1 | Amycolatopsis sp. YIM 10

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.

Lasso peptide predictions
Lists the possible core peptides for each biosynthetic enzyme. Each core peptide shows the leader and core peptide sequences.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.

#### Lassopeptide(s) for PQ460_RS19020

PQ460_RS19020
Leader:
MKEQKLQWQAPTLEVLDVNETMA
Full core:
G I G Y K Q I D W V S E Q D A D L Y N P S
Putative macrolactam:
G I G Y K Q I D

#### antiSMASH-DB 4.0 matches for PQ460_RS19020

100.0%
NZ_CP117416.1 and 3 others:
NZ_CP117876.1 Lassopeptides: PQ460_RS19020_lassopeptide NZ_JAQQZQ010000001.1 Lassopeptides: PO903_RS10225_lassopeptide NZ_JAQQZQ010000001.1 Lassopeptides: PO903_RS10220_lassopeptide
Lassopeptides: PQ456_RS04840_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G I G Y K Q I D W V S E Q D A D L Y N P S
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
95.2%
NZ_CP117876.1:
Lassopeptides: PQ460_RS19030_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G I G+K Q I D W V S E Q D A D L Y N P S
1
G I G W K Q I D W V S E Q D A D L Y N P S
21
90.5%
NZ_JAQQZQ010000001.1:
Lassopeptides: PO903_RS10215_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G I G++Q I D W V S E Q D A D L Y N P S
1
G I G W R Q I D W V S E Q D A D L Y N P S
21
with 29 more sequence matches
Only the first 10 are displayed here.
85.7%
NZ_CP117416.1:
Lassopeptides: PQ456_RS04830_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G I G++Q I D W V S+Q D A D L Y N P S
1
G I G W R Q I D W V S D Q D A D L Y N P S
21
81.0%
NC_014622.2 and 26 others:
NC_016641.1 Lassopeptides: HPL003_RS28495_lassopeptide NC_017542.1 Lassopeptides: PPM_RS29155_lassopeptide NZ_CP006872.1 Lassopeptides: PPSQR21_RS25845_lassopeptide NZ_CP020028.1 Lassopeptides: B4V02_RS25945_lassopeptide NZ_CP023711.1 Lassopeptides: CPY53_RS20730_lassopeptide NZ_CP025696.1 Lassopeptides: C0638_RS25110_lassopeptide NZ_CP025957.1 Lassopeptides: C1A50_RS25040_lassopeptide NZ_CP029370.1 Lassopeptides: DI243_RS05990_lassopeptide NZ_CP034141.1 Lassopeptides: EGM68_RS06425_lassopeptide NZ_CP040829.1 Lassopeptides: FGY93_RS02005_lassopeptide NZ_CP041731.1 Lassopeptides: FOA15_RS11830_lassopeptide NZ_CP042272.1 Lassopeptides: FQU75_RS22710_lassopeptide NZ_CP049598.1 Lassopeptides: G7L40_RS02540_lassopeptide NZ_CP084033.1 Lassopeptides: LAZ93_RS06040_lassopeptide NZ_CP085682.1 Lassopeptides: LJR53_RS05900_lassopeptide NZ_CP086373.1 Lassopeptides: LMH85_RS06275_lassopeptide NZ_CP092779.1 Lassopeptides: MJ749_RS05940_lassopeptide NZ_CP097766.1 Lassopeptides: MF620_RS06000_lassopeptide NZ_CP102865.1 Lassopeptides: NWS42_RS19270_lassopeptide NZ_FNYX01000001.1 Lassopeptides: BMY87_RS25010_lassopeptide NZ_JAOYTP010000002.1 Lassopeptides: OIU26_RS08460_lassopeptide NZ_JWJJ01000002.1 Lassopeptides: U707_RS25590_lassopeptide NZ_LNZF01000001.1 Lassopeptides: AVK83_RS26330_lassopeptide NZ_PNXP01000013.1 Lassopeptides: C1I59_RS05635_lassopeptide NZ_PNXQ01000012.1 Lassopeptides: C1I60_RS12180_lassopeptide NZ_POVT01000017.1 Lassopeptides: C1T20_RS25045_lassopeptide
Lassopeptides: PPSC2_RS58945_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G G+K Q I D W V S+ D A D L Y N P S
1
G K G W K Q I D W V S D H D A D L Y N P S
21
81.0%
NZ_CP117876.1:
Lassopeptides: PQ460_RS19025_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G I G++Q I D W V S E D A D L+N P S
1
G I G W R Q I D W V S E H D A D L F N P S
21
76.2%
NC_014483.2 and 10 others:
NC_023037.2 Lassopeptides: X809_RS27480_lassopeptide NZ_CP011420.1 Lassopeptides: VK72_RS27415_lassopeptide NZ_CP017967.2 Lassopeptides: PPYC1_RS06115_lassopeptide NZ_CP017968.3 Lassopeptides: PPYC2_RS06795_lassopeptide NZ_CP073682.1 Lassopeptides: KAI36_RS06145_lassopeptide NZ_CP073683.1 Lassopeptides: KAI37_RS05910_lassopeptide NZ_CP109848.1 Lassopeptides: OF859_RS24335_lassopeptide NZ_CP113973.1 Lassopeptides: OYT09_RS06050_lassopeptide NZ_FOYG01000001.1 Lassopeptides: BM358_RS26180_lassopeptide NZ_PTJM01000055.1 Lassopeptides: C5G87_RS12815_lassopeptide
Lassopeptides: PPE_RS25060_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G G+K Q I D W V S+ D A D L+N P S
1
G K G W K Q I D W V S D H D A D L H N P S
21
76.2%
NZ_CP045298.1:
Lassopeptides: GCU48_RS16790_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G G+K I D W V S+ D A D L Y N P S
1
G K G W K N I D W V S D F D A D L Y N P S
21
72.7%
NZ_AGFX01000048.1 and 1 other:
NZ_JH601049.1 Lassopeptides: WG8_RS27060_lassopeptide
Lassopeptides: KQI_RS28660_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P
20
G G+K Q I D W V S+ D A D L Y N P
1
G K G W K Q I D W V S D H D A D L Y N P
20
72.7%
NZ_FNNT01000001.1:
Lassopeptides: BLW49_RS28475_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G+G Y+Q I D W+S E D D L Y N P S
2
G V G Y R Q I D W I S E H D G D L Y N P S
22
71.4%
NZ_BMMB01000001.1:
Lassopeptides: IEX62_RS00125_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G G+K I D W V+ D A D L Y N P S
1
G K G W K A I D W V T Y D D A D L Y N P S
21
71.4%
NZ_CP013203.1:
Lassopeptides: ASL14_RS05780_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G G+K+I D W V S+ D A D L N P S
1
G K G W K E I D W V S D H D A D L V N P S
21
71.4%
NZ_CP015423.1 and 9 others:
NZ_CP061172.1 Lassopeptides: IAQ67_RS05910_lassopeptide NZ_CP071875.1 Lassopeptides: J4I02_RS06550_lassopeptide NZ_CP092831.1 Lassopeptides: MLD56_RS06365_lassopeptide NZ_JAAMNR010000001.1 Lassopeptides: G9G54_RS05075_lassopeptide NZ_JAFJXZ010000012.1 Lassopeptides: JYU28_RS05205_lassopeptide NZ_JAKVDC010000001.1 Lassopeptides: MKN04_RS01225_lassopeptide NZ_JANAVI010000007.1 Lassopeptides: NLX74_RS16260_lassopeptide NZ_JANAVN010000010.1 Lassopeptides: NLX78_RS16305_lassopeptide NZ_POVS01000014.1 Lassopeptides: C1T21_RS27040_lassopeptide
Lassopeptides: AOU00_RS26345_lassopeptide
1
G I G Y K Q I D W V S E Q D A D L Y N P S
21
G G++Q I D W V S+ D A D+Y N P S
1
G K G W R Q I D W V S D H D A D I Y N P S
21

#### 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:
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
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.03 out of 26.06
Confidence: medium
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.97 out of 21.55
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.60 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.90 out of 26.06
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.83 out of 23.79
Confidence: medium
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 22.81 out of 27.55
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.48 out of 32.93
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 20.90 out of 24.78
Confidence: medium
Additional weak hits (7):
HexR
Description: Glucose-responsive regulator
Species: Shewanella oneidensis MR-1
Score: 23.31 out of 31.73
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 20.38 out of 30.22
Confidence: weak
FuR variant 2
Description: Ferric Uptake Regulator
Species: Caulobacter crescentus CB15
Score: 22.91 out of 32.74
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
Confidence: weak
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 16.85 out of 20.47
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.10 out of 33.14
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 19.85 out of 27.18
Confidence: weak
Lasso peptides
RREFinder
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of disulfide bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.

PQ460_RS19020 - Class II
  Cleavage pHMM score: -11.60
  RODEO score: 17
  Monoisotopic mass: 2379.1 Da
  Molecular weight: 2380.5 Da
  Number of bridges: 0

RRE predictions
RREfinder results sidepanel.

lassopeptide protocluster (4316225...4340589)
PQ460_RS19010
  RRE type: Stand_Alone_Lasso_RRE
  Location: 10 - 94
  Score: 79.8

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
GnfM | Regulator of nitrogen-fixation genes
IolR | Regulator of the inositol catabolism
LexA variant 2 | Repressor of DNA damage response
LexA variant 3 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes

NZ_CP117876.1 - Region 10 - lassopeptide
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 4,635,873 - 4,658,356 nt. (total: 22,484 nt) Show pHMM detection rules used
lassopeptide: (PF13471 and Asn_synthase or micJ25 or mcjC)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
Lasso peptides
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 formyltransferase
PQ460_RS20330: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

PQ460_RS20390: methionyl-tRNA formyltransferase

smcogs
  SMCOG1228: methionyl-tRNA formyltransferase

Hydrolases: hydrolase
PQ460_RS20365: asparagine synthase (glutamine-hydrolyzing)

smcogs
  SMCOG1177: asparagine synthase (glutamine-hydrolyzing)

PQ460_RS20400: 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 | lassopeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000575.5 |  | 0.50 | ribosomal | lariatin | Rhodococcus jostii
BGC0000571.3 |  | 0.49 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001639.3 |  | 0.46 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0002306.2 |  | 0.43 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0000558.5 |  | 0.42 | ribosomal | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000494.5 |  | 0.42 | ribosomal | uberolysin | Streptococcus uberis
BGC0000592.5 |  | 0.42 | ribosomal | microviridin B | Microcystis aeruginosa NIES-298
BGC0000504.5 |  | 0.41 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0002260.3 |  | 0.40 | terpene | trichobrasilenol, xylarenic acid B, brasilane A, brasilane F, brasilane E, brasilane D | Annulohypoxylon truncatum
BGC0000520.5 |  | 0.40 | ribosomal | lacticin 3147 A1, lacticin 3147 A2 | Lactococcus lactis

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0000575.5 |  | 0.50 | ribosomal | lariatin | Rhodococcus jostii
BGC0000571.3 |  | 0.49 | ribosomal | burhizin | Paraburkholderia rhizoxinica HKI 454
BGC0001639.3 |  | 0.46 | ribosomal | klebsidin | Klebsiella pneumoniae
BGC0002306.2 |  | 0.43 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0000558.5 |  | 0.42 | ribosomal | sublancin 168 | Bacillus subtilis subsp. subtilis str. 168
BGC0000494.5 |  | 0.42 | ribosomal | uberolysin | Streptococcus uberis
BGC0000592.5 |  | 0.42 | ribosomal | microviridin B | Microcystis aeruginosa NIES-298
BGC0000504.5 |  | 0.41 | ribosomal | cytolysin ClyLl, cytolysin ClyLs | Plasmid pAD1
BGC0002260.3 |  | 0.40 | terpene | trichobrasilenol, xylarenic acid B, brasilane A, brasilane F, brasilane E, brasilane D | Annulohypoxylon truncatum
BGC0000520.5 |  | 0.40 | ribosomal | lacticin 3147 A1, lacticin 3147 A2 | Lactococcus lactis

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.

Lasso peptide predictions
Lists the possible core peptides for each biosynthetic enzyme. Each core peptide shows the leader and core peptide sequences.
Includes CompaRiPPson results for any available databases, with a detailed explanation here.
Lassopeptides - No core peptides 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:
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 19.86 out of 21.84
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.11 out of 20.97
Confidence: medium
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.35 out of 32.93
Confidence: medium
Additional weak hits (1):
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.88 out of 26.12
Confidence: weak
Lasso peptides
RREFinder
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of disulfide bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.
No core peptides found.
RRE predictions
RREfinder results sidepanel.

lassopeptide protocluster (4635872...4658356)
PQ460_RS20375
  RRE type: Stand_Alone_Lasso_RRE
  Location: 4 - 84
  Score: 51.4

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CcpA | Catabolite control protein A
LexA variant 3 | Repressor of DNA damage response
MexT | Global virulence regulator