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Overview
1.1
1.2
2.1
2.2

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

NZ_NHRV01000001.1 (Prevotella intermedia)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | RRE-containing | 16,980 | 37,372 |
Region 1.2 | lanthipeptide-class-i | 1,336,847 | 1,365,659 |

NZ_NHRV01000002.1 (Prevotella intermedia)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 2.1 | terpene-precursor | 1 | 19,175 |
Region 2.2 | resorcinol | 538,274 | 579,410 |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | RRE-containing | 16,980 | 37,372 |
Region 1.2 | lanthipeptide-class-i | 1,336,847 | 1,365,659 |
Region 2.1 | terpene-precursor | 1 | 19,175 |
Region 2.2 | resorcinol | 538,274 | 579,410 |

No secondary metabolite regions were found in these records:
  NZ_NHRV01000003.1 (Prevotella intermedia)
  NZ_NHRV01000004.1 (Prevotella intermedia)
  NZ_NHRV01000005.1 (Prevotella intermedia)

Compact view
NZ_NHRV01000001.1 - Region 1 - RRE-containing
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: 16,980 - 37,372 nt. (total: 20,393 nt) Show pHMM detection rules used
RRE-containing: 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])

#### 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 | RRE-containing | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002294.3 |  | 0.20 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002294.3 |  | 0.20 | other (other) | streptozotocin | Streptomyces achromogenes subsp. streptozoticus

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:
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.09 out of 32.93
Confidence: medium
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.59 out of 25.88
Confidence: medium
Additional weak hits (3):
NtrC
Description: Nitrogen regulatory protein C
Species: Pseudomonas putida KT2440
Score: 21.04 out of 29.72
Confidence: weak
MntR
Description: Manganese transport regulator
Species: Escherichia coli str. K-12 substr. MG1655
Score: 24.62 out of 39.62
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 23.36 out of 35.63
Confidence: weak
RREFinder
TFBS Finder
RRE predictions
RREfinder results sidepanel.

RRE-containing protocluster (16979...37372)
CBG55_RS00125
  RRE type: Stand_Alone_Lasso_RRE
  Location: 32 - 89
  Score: 30.4

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
LexA variant 3 | Repressor of DNA damage response
PsrA | Oleic acid responsive regulator

NZ_NHRV01000001.1 - Region 2 - 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: 1,336,847 - 1,365,659 nt. (total: 28,813 nt) Show pHMM detection rules used
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
CBG55_RS05850: Lantibiotic dehydratase domain protein

smcogs
  SMCOG1155: Lantibiotic dehydratase domain protein

CBG55_RS05855: Lanthionine synthetase C family protein

smcogs
  SMCOG1140: Lanthionine synthetase C family protein

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

Reference | lanthipeptide-class-i | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002576.2 |  | 0.72 | ribosomal | mechercharmycin | Thermoactinomyces sp.
BGC0002640.2 |  | 0.69 | ribosomal | thalassomonasin A, thalassomonasin B | Thalassomonas actiniarum
BGC0000541.5 |  | 0.53 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000542.3 |  | 0.53 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000590.5 |  | 0.51 | ribosomal | microcin N | Escherichia coli
BGC0001210.5 |  | 0.47 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.47 | ribosomal | thuricin | Bacillus thuringiensis
BGC0001229.4 |  | 0.47 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0001311.5 |  | 0.47 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0002698.2 |  | 0.46 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002576.2 |  | 0.72 | ribosomal | mechercharmycin | Thermoactinomyces sp.
BGC0002640.2 |  | 0.69 | ribosomal | thalassomonasin A, thalassomonasin B | Thalassomonas actiniarum
BGC0000541.5 |  | 0.53 | ribosomal | paenicidin A | Paenibacillus polymyxa
BGC0000542.3 |  | 0.53 | ribosomal | paenicidin B | Paenibacillus terrae
BGC0000590.5 |  | 0.51 | ribosomal | microcin N | Escherichia coli
BGC0001210.5 |  | 0.47 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.47 | ribosomal | thuricin | Bacillus thuringiensis
BGC0001229.4 |  | 0.47 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0001311.5 |  | 0.47 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0002698.2 |  | 0.46 | ribosomal | phaeornamide | Pseudophaeobacter arcticus DSM 23566

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

No significant matches found.

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

No significant matches found.

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

#### Lanthipeptide(s) for CBG55_RS05845

CBG55_RS13215
Leader:
MKKLRKLVLKKDVITSLGKTEQAN
Core:
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
Core with dehydrations:
L K G G M Dha A G Cys Dha D G Cys L Dha A W G H Dhb R I W N Cys Dha K A D Cys Dhb H D Cys G H Cys G D P Dhb W Dhb A Dha G D Cys P Dhb L R Cys Q V

#### antiSMASH-DB 4.0 matches for CBG55_RS13215

100.0%
NZ_NHRV01000001.1 and 1 other:
NZ_NHRV01000001.1 Lanthipeptides: allorf_1351556_1351795_lanthipeptide
Lanthipeptides: allorf_1351556_1351795_lanthipeptide
1
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
55
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
1
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
55
41.8%
NZ_FWXM01000003.1:
Lanthipeptides: B8967_RS11230_lanthipeptide
3
G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C
37
G +A G C S D G C L S + H T + N C S K A+C T D C G+C
18
G L F T A G C S D G C L S N F M H T H V L N C S K A N C T A D C G N C
52
38.2%
NZ_CP033931.1 and 1 other:
NZ_CP084347.1 Lanthipeptides: KB553_RS22385_lanthipeptide
Lanthipeptides: EG351_RS21210_lanthipeptide
3
G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C
37
G +A G C S D G C+S + H T + N C S K A+C T D C +C
18
G L F T A G C S D G C M S Q F M H T H L L N C S K A N C T A D C S N C
52
with 4 more sequence matches
25.5%
NZ_CP059572.1:
Lanthipeptides: AGRA3207_RS24970_lanthipeptide
10
S D G C L S A W G H T R I W N---C S K A D C T H D C G H C G D P
40
S D G C+ A T N C+ + C+H C G G P
16
S D G C V Y A C D P T W P I N S C Q C A S S G C S H T C G A T G R P
49
21.8%
NZ_CP060723.1 and 1 other:
NZ_CP060723.1 Lanthipeptides: H9L23_RS20840_lanthipeptide
Lanthipeptides: H9L23_RS20840_lanthipeptide
15
S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T
50
+A G T + S D G C G + A S C P
2
A A D G S T F V V G I S L E A E A A D G G S C G Q K S I I A S K T C P V
37
21.8%
NZ_CP062165.1 and 1 other:
NZ_LXQN01000019.1 Lanthipeptides: gpAD87_RS32325_lanthipeptide
Lanthipeptides: JNUCC31_RS12820_lanthipeptide
22
I W N C S K A D C T H D C G H C G D P T W T A S G D C P T
50
I W N C+ G C G+ T T A+ P T
4
I W N C T--------G G C G E Q T R T A N T C A P T
24
14.5%
NZ_CP060723.1 and 1 other:
NZ_CP060723.1 Lanthipeptides: H9L23_RS20830_lanthipeptide
Lanthipeptides: H9L23_RS20830_lanthipeptide
33
D C G H C G D P T W T A S G D C P
49
D G+C G T+ S C P
2
D V G N C G P Q T F Q V S K T C P
18

#### MIBiG 4.0 matches for CBG55_RS13215

9.1%
BGC0002111.3 (EVG22_32245):
Lanthipeptide: andalusicin A or andalusicin B
16
A W G H T R I W N C
25
A W T N C
14
A W A S T I S N N C
23
7.3%
BGC0002110.3 (QKV49894.1):
Lanthipeptide: birimositide
25
C S K A D C T H D C
34
C C T C
17
C P T T K C T S K C
26

#### Lanthipeptide(s) for CBG55_RS05850

CBG55_RS13215
Leader:
MKKLRKLVLKKDVITSLGKTEQAN
Core:
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
Core with dehydrations:
L K G G M Dha A G Cys Dha D G Cys L Dha A W G H Dhb R I W N Cys Dha K A D Cys Dhb H D Cys G H Cys G D P Dhb W Dhb A Dha G D Cys P Dhb L R Cys Q V

#### antiSMASH-DB 4.0 matches for CBG55_RS13215

100.0%
NZ_NHRV01000001.1 and 1 other:
NZ_NHRV01000001.1 Lanthipeptides: allorf_1351556_1351795_lanthipeptide
Lanthipeptides: allorf_1351556_1351795_lanthipeptide
1
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
55
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
1
L K G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T L R C Q V
55
41.8%
NZ_FWXM01000003.1:
Lanthipeptides: B8967_RS11230_lanthipeptide
3
G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C
37
G +A G C S D G C L S + H T + N C S K A+C T D C G+C
18
G L F T A G C S D G C L S N F M H T H V L N C S K A N C T A D C G N C
52
38.2%
NZ_CP033931.1 and 1 other:
NZ_CP084347.1 Lanthipeptides: KB553_RS22385_lanthipeptide
Lanthipeptides: EG351_RS21210_lanthipeptide
3
G G M S A G C S D G C L S A W G H T R I W N C S K A D C T H D C G H C
37
G +A G C S D G C+S + H T + N C S K A+C T D C +C
18
G L F T A G C S D G C M S Q F M H T H L L N C S K A N C T A D C S N C
52
with 4 more sequence matches
25.5%
NZ_CP059572.1:
Lanthipeptides: AGRA3207_RS24970_lanthipeptide
10
S D G C L S A W G H T R I W N---C S K A D C T H D C G H C G D P
40
S D G C+ A T N C+ + C+H C G G P
16
S D G C V Y A C D P T W P I N S C Q C A S S G C S H T C G A T G R P
49
21.8%
NZ_CP060723.1 and 1 other:
NZ_CP060723.1 Lanthipeptides: H9L23_RS20840_lanthipeptide
Lanthipeptides: H9L23_RS20840_lanthipeptide
15
S A W G H T R I W N C S K A D C T H D C G H C G D P T W T A S G D C P T
50
+A G T + S D G C G + A S C P
2
A A D G S T F V V G I S L E A E A A D G G S C G Q K S I I A S K T C P V
37
21.8%
NZ_CP062165.1 and 1 other:
NZ_LXQN01000019.1 Lanthipeptides: gpAD87_RS32325_lanthipeptide
Lanthipeptides: JNUCC31_RS12820_lanthipeptide
22
I W N C S K A D C T H D C G H C G D P T W T A S G D C P T
50
I W N C+ G C G+ T T A+ P T
4
I W N C T--------G G C G E Q T R T A N T C A P T
24
14.5%
NZ_CP060723.1 and 1 other:
NZ_CP060723.1 Lanthipeptides: H9L23_RS20830_lanthipeptide
Lanthipeptides: H9L23_RS20830_lanthipeptide
33
D C G H C G D P T W T A S G D C P
49
D G+C G T+ S C P
2
D V G N C G P Q T F Q V S K T C P
18

#### MIBiG 4.0 matches for CBG55_RS13215

9.1%
BGC0002111.3 (EVG22_32245):
Lanthipeptide: andalusicin A or andalusicin B
16
A W G H T R I W N C
25
A W T N C
14
A W A S T I S N N C
23
7.3%
BGC0002110.3 (QKV49894.1):
Lanthipeptide: birimositide
25
C S K A D C T H D C
34
C C T C
17
C P T T K C T S K C
26

#### 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: 22.99 out of 26.06
Confidence: medium
Additional weak hits (3):
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 21.05 out of 27.55
Confidence: weak
NuR
Description: Nickel-responsive regulator
Species: Streptomyces coelicolor
Score: 22.10 out of 30.98
Confidence: weak
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 16.27 out of 20.47
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.

CBG55_RS13215 - Class I
  Cleavage pHMM score: -14.60
  RODEO score: 23
  Monoisotopic mass: 5574.4 Da
  Molecular weight: 5578.2 Da
  Number of bridges: 8
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5596.2 Da N = 1
    5614.2 Da N = 2
CBG55_RS13215 - Class I
  Cleavage pHMM score: -14.60
  RODEO score: 23
  Monoisotopic mass: 5574.4 Da
  Molecular weight: 5578.2 Da
  Number of bridges: 8
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5596.2 Da N = 1
    5614.2 Da N = 2

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
MogR | Repressor of flagellar motility genes

NZ_NHRV01000002.1 - 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: 1 - 19,175 nt. (total: 19,175 nt) Show pHMM detection rules used
Region on contig edge.
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
Ligases: synthetase
CBG55_RS08875: 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
--- | --- | --- | --- | --- | ---
BGC0002309.2 |  | 0.36 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3 |  | 0.30 | terpene | raimonol | Streptomyces anulatus
BGC0000634.3 |  | 0.28 | terpene | carotenoid | Brevundimonas sp. SD212
BGC0000664.5 |  | 0.28 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001227.3 |  | 0.27 | terpene | isorenieratene | Streptomyces collinus Tu 365
BGC0000648.3 |  | 0.27 | terpene | carotenoid | Myxococcus xanthus
BGC0000665.5 |  | 0.26 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0000637.3 |  | 0.26 | terpene | carotenoid | Corynebacterium glutamicum
BGC0002221.2 |  | 0.26 | terpene | ent-kauren-16alpha-ol | Serpula lacrymans var. lacrymans S7.9
BGC0000678.5 |  | 0.26 | terpene | pentalenolactone | Streptomyces avermitilis MA-4680 = NBRC 14893

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002309.2 |  | 0.36 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0001911.3 |  | 0.30 | terpene | raimonol | Streptomyces anulatus
BGC0000634.3 |  | 0.28 | terpene | carotenoid | Brevundimonas sp. SD212
BGC0000664.5 |  | 0.28 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0001227.3 |  | 0.27 | terpene | isorenieratene | Streptomyces collinus Tu 365
BGC0000648.3 |  | 0.27 | terpene | carotenoid | Myxococcus xanthus
BGC0000665.5 |  | 0.26 | other (other), terpene | xiamycin, indosespene, sespenine, dixiamycin A, dixiamycin B, sulfadixiamycin A, sulfadixiamycin B, sulfadixiamycin C | Streptomyces sp. HKI0576
BGC0000637.3 |  | 0.26 | terpene | carotenoid | Corynebacterium glutamicum
BGC0002221.2 |  | 0.26 | terpene | ent-kauren-16alpha-ol | Serpula lacrymans var. lacrymans S7.9
BGC0000678.5 |  | 0.26 | terpene | pentalenolactone | Streptomyces avermitilis MA-4680 = NBRC 14893

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

No significant matches found.

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

No significant matches found.

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

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

Genes with terpene domains:
CBG55_RS08875: PT_FPPS_like
Domain 1 (27 - 323): Prenyltransferase; Farnesyl diphosphate synthase like
Subtype: unknown

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

Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable.
The strand of the match is shown by an arrow underneath the match.
Detailed documentation is available here.
Binding sites found:
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 25.31 out of 28.14
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.35 out of 26.06
Confidence: medium
MogR
Description: Repressor of flagellar motility genes
Species: Listeria monocytogenes EGD-e
Score: 22.93 out of 26.06
Confidence: medium
IolR
Description: Regulator of the inositol catabolism
Species: Caulobacter crescentus CB15
Score: 19.51 out of 23.79
Confidence: medium
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 21.43 out of 24.78
Confidence: medium
Additional weak hits (4):
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 22.11 out of 28.14
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 23.25 out of 30.97
Confidence: weak
CopR
Description: Copper-responsive regulator
Species: Lactococcus lactis subsp. lactis Il1403
Score: 24.05 out of 30.97
Confidence: weak
LuxO
Description: Repressor of luminescence
Species: Vibrio campbellii ATCC BAA-1116
Score: 20.68 out of 26.12
Confidence: weak
Terpene
TFBS Finder
Glossary
Glossary showing acronyms and their full names.

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

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
IolR | Regulator of the inositol catabolism
LexA variant 2 | Repressor of DNA damage response
MogR | Repressor of flagellar motility genes
PerR | Peroxide regulator

NZ_NHRV01000002.1 - Region 2 - resorcinol
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: 538,274 - 579,410 nt. (total: 41,137 nt) Show pHMM detection rules used
resorcinol: DarB

#### 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
Ligases: synthase
CBG55_RS11425: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs
  SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

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 | resorcinol | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001526.4 |  | 0.32 | other (other) | bartoloside E, bartoloside F, bartoloside G, bartoloside H, bartoloside I, bartoloside J, bartoloside K | Synechocystis salina LEGE 06099
BGC0001525.3 |  | 0.30 | other (other) | bartoloside B, bartoloside C, bartoloside D | Synechocystis salina LEGE 06155
BGC0000838.3 |  | 0.20 | PKS | flexirubin | Flavobacterium johnsoniae UW101

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001526.4 |  | 0.32 | other (other) | bartoloside E, bartoloside F, bartoloside G, bartoloside H, bartoloside I, bartoloside J, bartoloside K | Synechocystis salina LEGE 06099
BGC0001525.3 |  | 0.30 | other (other) | bartoloside B, bartoloside C, bartoloside D | Synechocystis salina LEGE 06155
BGC0000838.3 |  | 0.20 | PKS | flexirubin | Flavobacterium johnsoniae UW101

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:
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 21.57 out of 25.88
Confidence: medium
CodY
Description: Regulator of stationary phase and virulence in Gram-positive bacteria
Species: Bacillus, Lactococcus & Streptococcus sp.
Score: 21.21 out of 27.78
Confidence: medium
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 20.99 out of 25.88
Confidence: medium
PsrA
Description: Oleic acid responsive regulator
Species: Pseudomonas sp.
Score: 21.57 out of 25.88
Confidence: medium
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 21.26 out of 28.19
Confidence: medium
Additional weak hits (3):
SypG
Description: Regulator of biofilm formation and host colonization
Species: Vibrio fischeri ES114
Score: 21.45 out of 29.25
Confidence: weak
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 21.55 out of 30.25
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 21.91 out of 29.38
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CodY | Regulator of stationary phase and virulence in Gram-positive bacteria
PsrA | Oleic acid responsive regulator
ZuR variant 1 | Zinc-responsive repressor