Select genomic region:
Overview
7.1
8.1
15.1
46.1

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

NZ_JADNJR010000016.1 (Dorea longicatena)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 7.1 | cyclic-lactone-autoinducer,lanthipeptide-class-i | 51,186 | 82,834 | High | nisin O | ribosomal:RiPP:Lanthipeptide

NZ_JADNJR010000017.1 (Dorea longicatena)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 8.1 | ranthipeptide | 36,688 | 58,438 |

NZ_JADNJR010000023.1 (Dorea longicatena)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 15.1 | ranthipeptide | 3,782 | 28,577 |

NZ_JADNJR010000007.1 (Dorea longicatena)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 46.1 | terpene-precursor | 37,604 | 58,506 |  |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 7.1 | cyclic-lactone-autoinducer,lanthipeptide-class-i | 51,186 | 82,834 | High | nisin O | ribosomal:RiPP:Lanthipeptide
Region 8.1 | ranthipeptide | 36,688 | 58,438 |
Region 15.1 | ranthipeptide | 3,782 | 28,577 |
Region 46.1 | terpene-precursor | 37,604 | 58,506 |  |

No secondary metabolite regions were found in these records:
  NZ_JADNJR010000010.1 (Dorea longicatena)
  NZ_JADNJR010000011.1 (Dorea longicatena)
  NZ_JADNJR010000012.1 (Dorea longicatena)
  NZ_JADNJR010000013.1 (Dorea longicatena)
  NZ_JADNJR010000014.1 (Dorea longicatena)
  NZ_JADNJR010000015.1 (Dorea longicatena)
  NZ_JADNJR010000018.1 (Dorea longicatena)
  NZ_JADNJR010000019.1 (Dorea longicatena)
  NZ_JADNJR010000001.1 (Dorea longicatena)
  NZ_JADNJR010000020.1 (Dorea longicatena)
  NZ_JADNJR010000021.1 (Dorea longicatena)
  NZ_JADNJR010000022.1 (Dorea longicatena)
  NZ_JADNJR010000024.1 (Dorea longicatena)
  NZ_JADNJR010000025.1 (Dorea longicatena)
  NZ_JADNJR010000026.1 (Dorea longicatena)
  NZ_JADNJR010000027.1 (Dorea longicatena)
  NZ_JADNJR010000028.1 (Dorea longicatena)
  NZ_JADNJR010000029.1 (Dorea longicatena)
  NZ_JADNJR010000002.1 (Dorea longicatena)
  NZ_JADNJR010000030.1 (Dorea longicatena)
  NZ_JADNJR010000031.1 (Dorea longicatena)
  NZ_JADNJR010000032.1 (Dorea longicatena)
  NZ_JADNJR010000033.1 (Dorea longicatena)
  NZ_JADNJR010000034.1 (Dorea longicatena)
  NZ_JADNJR010000035.1 (Dorea longicatena)
  NZ_JADNJR010000036.1 (Dorea longicatena)
  NZ_JADNJR010000037.1 (Dorea longicatena)
  NZ_JADNJR010000038.1 (Dorea longicatena)
  NZ_JADNJR010000039.1 (Dorea longicatena)
  NZ_JADNJR010000003.1 (Dorea longicatena)
  NZ_JADNJR010000040.1 (Dorea longicatena)
  NZ_JADNJR010000041.1 (Dorea longicatena)
  NZ_JADNJR010000042.1 (Dorea longicatena)
  NZ_JADNJR010000043.1 (Dorea longicatena)
  NZ_JADNJR010000044.1 (Dorea longicatena)
  NZ_JADNJR010000045.1 (Dorea longicatena)
  NZ_JADNJR010000046.1 (Dorea longicatena)
  NZ_JADNJR010000047.1 (Dorea longicatena)
  NZ_JADNJR010000048.1 (Dorea longicatena)
  NZ_JADNJR010000004.1 (Dorea longicatena)
  NZ_JADNJR010000005.1 (Dorea longicatena)
  NZ_JADNJR010000006.1 (Dorea longicatena)
  NZ_JADNJR010000008.1 (Dorea longicatena)
  NZ_JADNJR010000009.1 (Dorea longicatena)

Compact view
NZ_JADNJR010000016.1 - Region 1 - cyclic-lactone-autoinducer,lanthipeptide-class-i
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: 51,186 - 82,834 nt. (total: 31,649 nt) Show pHMM detection rules used
Region on contig edge.
cyclic-lactone-autoinducer: (TIGR04223 or AgrB)
lanthipeptide-class-i: (((Lant_dehydr_N or Lant_dehydr_C) and cds(LANC_like and not Pkinase)) and not (YcaO or TIGR03604))

#### Legend:

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

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Lyases: cyclase dehydratase
I2E58_RS10840: Lanthionine synthetase C family protein

smcogs
  SMCOG1140: Lanthionine synthetase C family protein

I2E58_RS10850: 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 | cyclic-lactone-autoinducer | lanthipeptide-class-i | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0001701.4 |  |  | 0.68 | ribosomal | nisin O | Blautia obeum
BGC0000538.3 |  |  | 0.47 | ribosomal | nisin Z | Lactococcus lactis
BGC0002576.2 |  |  | 0.43 | ribosomal | mechercharmycin | Thermoactinomyces sp.
BGC0001289.5 |  |  | 0.43 | ribosomal | penisin | Paenibacillus ehimensis
BGC0000506.4 |  |  | 0.40 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii
BGC0000559.4 |  |  | 0.36 | ribosomal | subtilin | Bacillus subtilis subsp. spizizenii ATCC 6633
BGC0000541.5 |  |  | 0.36 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000542.3 |  |  | 0.36 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000535.4 |  |  | 0.33 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000515.4 |  |  | 0.33 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001701.4 |  | 0.83 | ribosomal | nisin O | Blautia obeum
BGC0002576.2 |  | 0.74 | ribosomal | mechercharmycin | Thermoactinomyces sp.
BGC0000538.3 |  | 0.65 | ribosomal | nisin Z | Lactococcus lactis
BGC0001289.5 |  | 0.59 | ribosomal | penisin | Paenibacillus ehimensis
BGC0000541.5 |  | 0.56 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000542.3 |  | 0.56 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000535.4 |  | 0.56 | ribosomal | nisin A | Lactococcus lactis subsp. lactis
BGC0000515.4 |  | 0.55 | ribosomal | geobacillin I | Geobacillus thermodenitrificans NG80-2
BGC0002323.2 |  | 0.54 | ribosomal | nisin J | Staphylococcus capitis
BGC0000506.4 |  | 0.52 | ribosomal | entianin | Bacillus subtilis subsp. spizizenii

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 I2E58_RS10850

I2E58_RS10875
Leader:
MAKFDDFDLDVTKTAAQGGIEPK
I2E58_RS10880
Leader:
MGKFDDFDLDVTKTAAQGGIEPK
Shared core:
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T G K
Core with dehydrations:
Y K Dha K Dha A Cys Dhb P G Cys P Dhb G I L M Dhb Cys P L K Dhb A Dhb Cys G Cys H I Dhb G K

#### antiSMASH-DB 4.0 matches for I2E58_RS10875

100.0%
NZ_JADNJR010000016.1 and 2 others:
NZ_JADNJR010000016.1 Lanthipeptides: I2E58_RS10875_lanthipeptide NZ_QSHK01000002.1 Lanthipeptides: DW860_RS04740_lanthipeptide
Lanthipeptides: I2E58_RS10880_lanthipeptide
1
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T G K
33
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T G K
1
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T G K
33
97.0%
NZ_QSHK01000002.1 and 1 other:
NZ_QSHK01000002.1 Lanthipeptides: DW860_RS04730_lanthipeptide
Lanthipeptides: DW860_RS04735_lanthipeptide
1
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T G K
33
Y K S K S C T P G C P T G I L M T C P L K T A T C G C H I T G K
1
Y K S K S V C T P G C P T G I L M T C P L K T A T C G C H I T G K
33
78.8%
NZ_CP015405.2 and 7 others:
NZ_CP015405.2 Lanthipeptides: A4V09_RS08295_lanthipeptide NZ_CP015405.2 Lanthipeptides: A4V09_RS08290_lanthipeptide NZ_CP015405.2 Lanthipeptides: A4V09_RS08285_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06240_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06235_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06230_lanthipeptide NZ_CP053228.1 Lanthipeptides: HL650_RS06225_lanthipeptide
Lanthipeptides: A4V09_RS08300_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I T G K
33
S K S C T P G C T G I L M T C P++T A T C G C I T G K
3
S K S L C T P G C V T G I L M T C P V Q T A T C G C Q I T G K
33
with 71 more sequence matches
Only the first 10 are displayed here.
69.7%
NC_015600.1 and 14 others:
NZ_AP020310.1 Lanthipeptides: SAGCMC97051_RS07300_lanthipeptide NZ_ATVP01000001.1 Lanthipeptides: G574_RS11150_lanthipeptide NZ_BCFB01000042.1 Lanthipeptides: GOZ36_RS07980_lanthipeptide NZ_CP068708.1 Lanthipeptides: JM964_RS04040_lanthipeptide NZ_CP116958.1 Lanthipeptides: M0P28_RS07755_lanthipeptide NZ_CP116958.1 Lanthipeptides: M0P28_RS07755_lanthipeptide NZ_FIKS01000005.1 Lanthipeptides: A0525_RS10015_lanthipeptide NZ_GL636070.1 Lanthipeptides: HMPREF9171_RS106200_lanthipeptide NZ_JADPLU010000018.1 Lanthipeptides: I4V82_RS09545_lanthipeptide NZ_JAKVIE010000017.1 Lanthipeptides: MK857_RS08340_lanthipeptide NZ_JAQDQV010000001.1 Lanthipeptides: PGO74_RS00635_lanthipeptide NZ_JAQDQV010000001.1 Lanthipeptides: PGO74_RS00635_lanthipeptide NZ_LR594050.1 Lanthipeptides: FGL20_RS03485_lanthipeptide NZ_SSXN01000004.1 Lanthipeptides: FAJ36_RS04715_lanthipeptide
Lanthipeptides: SGPB_RS10680_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
S K S C T P G C T G I L M T C +K T A T C G C H
3
S K S L C T P G C K T G I L M T C A I K T A T C G C H F
30
69.7%
NZ_CP059471.1 and 3 others:
NZ_FNZW01000001.1 Lanthipeptides: BMZ61_RS02110_lanthipeptide NZ_FOYC01000001.1 Lanthipeptides: BMZ88_RS03370_lanthipeptide NZ_KE384124.1 Lanthipeptides: G597_RS0106700_lanthipeptide
Lanthipeptides: H1R75_RS06635_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
S K S C T P G C T G L M T C P+K T A T C G C H
3
S K S L C T P G C K T G A L M T C P I K T A T C G C H F
30
69.7%
NZ_JAMDIB010000004.1:
Lanthipeptides: M5P35_RS04030_lanthipeptide
3
S K S A C T P-G C P T G I L M T C P L K T A T C G C H I
30
S K S C T P G C T G I L M T C +K T A T C G C H
3
S K S L C T P P G C K T G I L M T C A I K T A T C G C H F
31
66.7%
NZ_CP024974.1 and 1 other:
NZ_JAIMDQ010000006.1 Lanthipeptides: K6V44_RS04045_lanthipeptide
Lanthipeptides: CVO91_RS06555_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
S S C T P G C T G I L M T C +K T A T C G C H
3
S I S L C T P G C K T G I L M T C A I K T A T C G C H F
30
63.6%
NZ_BMMB01000002.1:
Lanthipeptides: IEX62_RS05935_lanthipeptide
1
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T
31
+K S K S C T P G C T G+L T C ++T A T C C H I+
1
W K S K S F C T P G C V T G V L Q T C F I Q T A T C N C H I S
31
60.6%
NZ_CP025079.1 and 3 others:
NZ_CP047644.1 Lanthipeptides: GNE05_RS17275_lanthipeptide NZ_CP099859.1 Lanthipeptides: NIZ95_RS16280_lanthipeptide NZ_CP101621.1 Lanthipeptides: NN913_RS16115_lanthipeptide
Lanthipeptides: BVQ_RS17705_lanthipeptide
1
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T
31
+K S+S C T P G C T G+L T C L+T T C C H I+
1
W K S E S V C T P G C V T G V L Q T C F L Q T I T C N C H I S
31
60.6%
NZ_CP117416.1 and 1 other:
NZ_JAQQZQ010000001.1 Lanthipeptides: PO903_RS06885_lanthipeptide
Lanthipeptides: PQ456_RS01230_lanthipeptide
1
Y K S K S A C T P G C P T G I L M T C P L K T A T C G C H I T
31
+K S+S C T P G C T G+L T C ++T A T C C H I+
1
W K S Q S F C T P G C V T G V L Q T C F I Q T A T C N C H I S
31
60.0%
NZ_NHVL01000013.1:
Lanthipeptides: CEU70_RS16830_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C--H I T G K
33
S K S C T P G C T G I L T C +K+A T C G C H I G K
5
S K S L C T P G C K T G I L Q T C A I K S A T C G C S I H I G G K
37
58.8%
NZ_JADNFO010000025.1:
Lanthipeptides: I2C89_RS09745_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
S S C T P G C T G+L M C L K T A T C C I
3
S Y S L C T P G C K T G V L M A C H L K T A T C N C S I
30
58.3%
NZ_NHVL01000013.1:
Lanthipeptides: CEU70_RS16825_lanthipeptide
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
S K S C T P G C T G I L T C +K+A T C G C I
5
S K S L C T P G C K T G I L Q T C A I K S A T C G C S I
32

#### MIBiG 4.0 matches for I2E58_RS10875

55.9%
BGC0000535.4 (ADJ56352.1):
Lanthipeptide: nisin A
3
S K S A C T P G C P T G I L M T C P L K T A T C G C H I
30
S S C T P G C T G L M C +K T A T C C I
3
S I S L C T P G C K T G A L M G C N M K T A T C H C S I
30
12.1%
BGC0000582.4 (ADR72962.1):
Linaridin: cypemycin
8
T P G C P T
13
T P P T
2
T P A T P T
7

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 24.91 out of 26.06
Confidence: strong
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 24.38 out of 29.38
Confidence: medium
CcpA
Description: Catabolite control protein A
Species: Streptococcus & Clostridium sp.
Score: 18.05 out of 20.97
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 23.15 out of 27.78
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 23.93 out of 28.19
Confidence: medium
AfsR
Description: Pleiotropic regulatory for antibiotic production
Species: Streptomyces coelicolor
Score: 19.28 out of 23.05
Confidence: medium
Additional weak hits (5):
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.77 out of 23.43
Confidence: weak
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 15.81 out of 18.46
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.50 out of 26.12
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 22.64 out of 30.25
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.70 out of 27.18
Confidence: weak
Lanthipeptides
RREFinder
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.

I2E58_RS10875 - Class I
  Cleavage pHMM score: 12.50
  RODEO score: 26
  Monoisotopic mass: 3226.6 Da
  Molecular weight: 3228.9 Da
  Number of bridges: 5
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3246.9 Da N = 1
    3264.9 Da N = 2
    3282.9 Da N = 3
I2E58_RS10880 - Class I
  Cleavage pHMM score: 12.50
  RODEO score: 26
  Monoisotopic mass: 3226.6 Da
  Molecular weight: 3228.9 Da
  Number of bridges: 5
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3246.9 Da N = 1
    3264.9 Da N = 2
    3282.9 Da N = 3

RRE predictions
RREfinder results sidepanel.

lanthipeptide-class-i protocluster (57049...82834)
I2E58_RS10850
  RRE type: Lanthipeptide_LanB_RRE
  Location: 142 - 228
  Score: 44.3

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
AfsR | Pleiotropic regulatory for antibiotic production
CcpA | Catabolite control protein A
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
FuR variant 1 | Ferric Uptake Regulator
MogR | Repressor of flagellar motility genes
ZuR variant 1 | Zinc-responsive repressor

NZ_JADNJR010000017.1 - Region 1 - ranthipeptide
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 36,688 - 58,438 nt. (total: 21,751 nt) Show pHMM detection rules used
ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or (YcaO or TIGR03604))))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
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
Hydrolases: hydrolase
I2E58_RS11145: HAD-superfamily hydrolase, subfamily IA, variant

smcogs
  SMCOG1115: HAD-superfamily hydrolase, subfamily IA, variant

I2E58_RS11220: metallo-beta-lactamase family protein

smcogs
  SMCOG1170: metallo-beta-lactamase family protein

Translocases: transport
I2E58_RS11200: MMPL domain-containing transport protein

smcogs
  SMCOG1035: MMPL domain-containing transport 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 | ranthipeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002306.2 |  | 0.47 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001387.5 |  | 0.35 | other (other) | nucleocidin | Streptomyces calvus
BGC0000842.5 |  | 0.34 | other (non-nrp beta-lactam) | carbapenem MM4550 | Streptomyces argenteolus
BGC0001607.5 |  | 0.32 | other (other) | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0001591.4 |  | 0.31 | other (other) | fatty acid enol ester, N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000604.4 |  | 0.30 | ribosomal | GE2270A | Nonomuraea sp. WU8817
BGC0001155.5 |  | 0.30 | ribosomal | GE2270 | Planobispora rosea
BGC0001540.5 |  | 0.30 | other (other) | CC-1065 | Streptomyces zelensis
BGC0002713.2 |  | 0.30 | NRPS | mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D | Photorhabdus laumondii subsp. laumondii
BGC0000466.5 |  | 0.27 | NRPS | yatakemycin | Streptomyces sp. TP-A2060

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002306.2 |  | 0.47 | ribosomal | freyrasin | Paenibacillus polymyxa ATCC 842
BGC0001387.5 |  | 0.35 | other (other) | nucleocidin | Streptomyces calvus
BGC0000842.5 |  | 0.34 | other (non-nrp beta-lactam) | carbapenem MM4550 | Streptomyces argenteolus
BGC0001607.5 |  | 0.32 | other (other) | gilvusmycin | Streptomyces sp. NRRL B-1347
BGC0001591.4 |  | 0.31 | other (other) | fatty acid enol ester, N-tetradecanoyl tyrosine | uncultured bacterium CSLC2
BGC0000604.4 |  | 0.30 | ribosomal | GE2270A | Nonomuraea sp. WU8817
BGC0001155.5 |  | 0.30 | ribosomal | GE2270 | Planobispora rosea
BGC0001540.5 |  | 0.30 | other (other) | CC-1065 | Streptomyces zelensis
BGC0002713.2 |  | 0.30 | NRPS | mevalagmapeptide A, mevalagmapeptide B, mevalagmapeptide C, mevalagmapeptide D | Photorhabdus laumondii subsp. laumondii
BGC0000466.5 |  | 0.27 | NRPS | yatakemycin | Streptomyces sp. TP-A2060

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:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
Additional weak hits (3):
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production
Species: Streptomyces coelicolor
Score: 16.79 out of 19.52
Confidence: weak
OsdR
Description: Development and stress management regulator
Species: Streptomyces coelicolor
Score: 19.82 out of 30.12
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 23.50 out of 32.93
Confidence: weak
RREFinder
TFBS Finder
RRE predictions
RREfinder results sidepanel.

ranthipeptide protocluster (36687...58438)
I2E58_RS11195
  RRE type: Ranthipeptide_rSAM_RRE
  Location: 0 - 111
  Score: 96.0

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ToxT | Regulator of MSHA biosynthesis

NZ_JADNJR010000023.1 - Region 1 - ranthipeptide
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 3,782 - 28,577 nt. (total: 24,796 nt) Show pHMM detection rules used
Region on contig edge.
ranthipeptide: (TIGR03973 or SCIFF or (cds(PF04055 and (TIGR04085 or SPASM)) and minimum(1, [Bottromycin_Methyltransferase_RRE, Cyanobactin_D_RRE, Cytolysin_C_RRE, Goadsporin_CD_RRE, Heterocycloanthracin_C_RRE, Lanthipeptide_LanB_RRE, Lasso_Fused_RRE, Mycofactocin_RRE, NHLP_CD_RRE, Other_Sactipeptide_rSAM_RRE, Pantocin_Microcin_RRE, Plantazolicin_C_RRE, PlpY_RRE, PqqD_RRE, Proteusin_Epimerase_RRE, Proteusin_Methyltransferase_RRE, Quinohemoprotein_rSAM_RRE, Ranthipeptide_rSAM_RRE, Stand_Alone_Lasso_RRE, Streptide_RRE, Subtilosin_rSAM_RRE, Thiaglutamate_B_RRE, Thiaglutamate_G_RRE, Thiaglutamate_I_RRE, Thiopeptide_F_RRE, Thuricin_rSAM_RRE, Thurincin_rSAM_RRE, Trifolitoxin_RRE]) and not (TIGR01716 or subtilosin or TIGR02111 or TIGR03966 or TIGR04103 or (YcaO or TIGR03604))))

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
Tailoring
MIBiG comparison
KnownClusterBlast
SubClusterBlast
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 | ranthipeptide | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002825.2 |  | 0.42 | ribosomal | nocapeptin A | Nocardia terpenica IFM 0406
BGC0002150.2 |  | 0.42 | ribosomal | triculamin | Streptomyces triculaminicus
BGC0002151.2 |  | 0.42 | ribosomal | alboverticillin | Streptomyces griseocarneus
BGC0000802.5 |  | 0.42 | saccharide | succinoglycan | Sinorhizobium meliloti
BGC0000592.5 |  | 0.40 | ribosomal | microviridin B | Microcystis aeruginosa NIES-298
BGC0002144.3 |  | 0.40 | ribosomal | phazolicin | Rhizobium sp. Pop5
BGC0000518.3 |  | 0.40 | ribosomal | informatipeptin | Streptomyces viridochromogenes DSM 40736
BGC0002674.2 |  | 0.40 | ribosomal | enterocin F4-9 | Enterococcus faecalis
BGC0002049.3 |  | 0.40 | ribosomal | microviridin N9, microviridin N8, microviridin N7, microviridin N6, microviridin N5, microviridin N4, microviridin N3 | Nostoc punctiforme PCC 73102
BGC0000594.5 |  | 0.39 | ribosomal | microviridin K | Planktothrix agardhii NIVA-CYA 126/8

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002825.2 |  | 0.42 | ribosomal | nocapeptin A | Nocardia terpenica IFM 0406
BGC0002150.2 |  | 0.42 | ribosomal | triculamin | Streptomyces triculaminicus
BGC0002151.2 |  | 0.42 | ribosomal | alboverticillin | Streptomyces griseocarneus
BGC0000802.5 |  | 0.42 | saccharide | succinoglycan | Sinorhizobium meliloti
BGC0000592.5 |  | 0.40 | ribosomal | microviridin B | Microcystis aeruginosa NIES-298
BGC0002144.3 |  | 0.40 | ribosomal | phazolicin | Rhizobium sp. Pop5
BGC0000518.3 |  | 0.40 | ribosomal | informatipeptin | Streptomyces viridochromogenes DSM 40736
BGC0002674.2 |  | 0.40 | ribosomal | enterocin F4-9 | Enterococcus faecalis
BGC0002049.3 |  | 0.40 | ribosomal | microviridin N9, microviridin N8, microviridin N7, microviridin N6, microviridin N5, microviridin N4, microviridin N3 | Nostoc punctiforme PCC 73102
BGC0000594.5 |  | 0.39 | ribosomal | microviridin K | Planktothrix agardhii NIVA-CYA 126/8

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:
ArcA
Description: Repressor of carbon oxidation
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.19 out of 21.55
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.24 out of 23.79
Confidence: medium
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 26.59 out of 33.14
Confidence: medium
Additional weak hits (5):
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 22.78 out of 30.22
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 21.58 out of 26.12
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.30 out of 20.01
Confidence: weak
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 21.81 out of 26.06
Confidence: weak
RREFinder
TFBS Finder
RRE predictions
RREfinder results sidepanel.

ranthipeptide protocluster (3781...28577)
I2E58_RS12875
  RRE type: Stand_Alone_Lasso_RRE
  Location: 34 - 87
  Score: 35.4

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
ArcA | Repressor of carbon oxidation
IolR | Regulator of the inositol catabolism
ZuR variant 2 | Zinc-responsive repressor

NZ_JADNJR010000007.1 - Region 1 - 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: 37,604 - 58,506 nt. (total: 20,903 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: glycosyltransferase
I2E58_RS06020: glycosyl transferase group 1

smcogs
  SMCOG1045: glycosyl transferase group 1

Hydrolases: back translocase
I2E58_RS06085: GTP-binding protein LepA

smcogs
  SMCOG1190: GTP-binding protein LepA

Ligases: synthase synthetase
I2E58_RS06055: 1-deoxy-D-xylulose-5-phosphate synthase

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

I2E58_RS06060: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

Similar gene clusters
Shows areas that are similar to the current region to a reference database.
Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Analysis type:

Reference | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0000665.5 |  | 0.39 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0001594.3 |  | 0.38 | other (other) | fischerindole L | Fischerella muscicola UTEX 1829
BGC0000668.5 |  | 0.38 | other (other), terpene | 12-epi-hapalindole C isonitrile, 12-epi-hapalindole E, 12-epi-fischerindole U isonitrile, fischerindole L, 12-epi-fischerindole I isonitrile, welwitindolinone A isonitrile, welwitindolinone B isothiocyanate, welwitindolinone C isothiocyanate, N-methylwelwitindolinone C isothiocyanate, N-methylwelwitinsolinone C isonitrile, 3-epi-welwitindolinone B isothiocyanate, 3-(Z-2'-isocyanoethenyl)-indole | Hapalosiphon welwitschii UTEX B 1830
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0000663.5 |  | 0.38 | terpene | hopene | Streptomyces coelicolor A3(2)
BGC0001456.3 |  | 0.38 | terpene | isorenieratene | Streptomyces argillaceus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002283.2 |  | 0.49 | terpene | sodorifen | Serratia plymuthica
BGC0001361.3 |  | 0.49 | terpene | sodorifen | Serratia plymuthica 4Rx13
BGC0002397.2 |  | 0.47 | terpene | astallatene | Arabidopsis thaliana
BGC0002400.2 |  | 0.44 | terpene | boleracene | Brassica oleracea var. oleracea
BGC0000665.5 |  | 0.39 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0001594.3 |  | 0.38 | other (other) | fischerindole L | Fischerella muscicola UTEX 1829
BGC0000668.5 |  | 0.38 | other (other), terpene | 12-epi-hapalindole C isonitrile, 12-epi-hapalindole E, 12-epi-fischerindole U isonitrile, fischerindole L, 12-epi-fischerindole I isonitrile, welwitindolinone A isonitrile, welwitindolinone B isothiocyanate, welwitindolinone C isothiocyanate, N-methylwelwitindolinone C isothiocyanate, N-methylwelwitinsolinone C isonitrile, 3-epi-welwitindolinone B isothiocyanate, 3-(Z-2'-isocyanoethenyl)-indole | Hapalosiphon welwitschii UTEX B 1830
BGC0002398.2 |  | 0.38 | terpene | (-)-ent-quiannulatene | Arabidopsis thaliana
BGC0000663.5 |  | 0.38 | terpene | hopene | Streptomyces coelicolor A3(2)
BGC0001456.3 |  | 0.38 | terpene | isorenieratene | Streptomyces argillaceus

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:
I2E58_RS06060: PT_FPPS_like
Domain 1 (35 - 298): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: Farnesyl diphosphate synthase, bacterial

Reactions:
  IPP, DMAPP → 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:
ToxT
Description: Regulator of MSHA biosynthesis
Species: Vibrio cholerae O395
Score: 18.57 out of 18.57
Confidence: strong
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.64 out of 26.06
Confidence: medium
Additional weak hits (2):
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 24.98 out of 33.14
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 17.23 out of 20.01
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
--- | ---
MogR | Repressor of flagellar motility genes
ToxT | Regulator of MSHA biosynthesis