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1.1
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### Identified secondary metabolite regions using strictness 'relaxed'

NZ_CP035495.1 (Xylanimonas allomyrinae)

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | lanthipeptide-class-v,lanthipeptide-class-ii | 890,984 | 934,012 |  |
Region 1.2 | terpene-precursor | 1,349,948 | 1,371,045 |  |
Region 1.3 | polyhalogenated-pyrrole | 3,627,739 | 3,663,877 |  |

Region | Type | From | To | Similarity Confidence | Most similar known cluster
--- | --- | --- | --- | --- | ---
Region 1.1 | lanthipeptide-class-v,lanthipeptide-class-ii | 890,984 | 934,012 |  |
Region 1.2 | terpene-precursor | 1,349,948 | 1,371,045 |  |
Region 1.3 | polyhalogenated-pyrrole | 3,627,739 | 3,663,877 |  |

No secondary metabolite regions were found in these records:
  NZ_CP035496.1 (Xylanimonas allomyrinae)

Compact view
NZ_CP035495.1 - Region 1 - lanthipeptide-class-ii,lanthipeptide-class-v
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
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Location: 890,984 - 934,012 nt. (total: 43,029 nt) Show pHMM detection rules used
lanthipeptide-class-v: (APH and HopA1)
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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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
Oxidoreductases: oxidoreductase
ET495_RS04090: oxidoreductase

smcogs
  SMCOG1083: oxidoreductase

Transferases: acetyltransferase
ET495_RS03985: GCN5-related N-acetyltransferase

smcogs
  SMCOG1111: GCN5-related N-acetyltransferase

Lyases: cyclase
ET495_RS04135: lanthionine synthetase C family protein

smcogs
  SMCOG1070: lanthionine synthetase C family protein

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

Reference | lanthipeptide-class-v | lanthipeptide-class-ii | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | --- | ---
BGC0000517.4 |  |  | 0.43 | ribosomal | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0002110.3 |  |  | 0.42 | ribosomal | birimositide | Streptomyces rimosus subsp. rimosus WC-3908
BGC0000554.4 |  |  | 0.38 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000525.5 |  |  | 0.36 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0001210.5 |  |  | 0.35 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  |  | 0.35 | ribosomal | thuricin | Bacillus thuringiensis
BGC0000563.4 |  |  | 0.34 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0001311.5 |  |  | 0.34 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0001229.4 |  |  | 0.33 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0000539.5 |  |  | 0.33 | ribosomal | nukacin ISK-1 | Staphylococcus warneri

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002110.3 |  | 0.55 | ribosomal | birimositide | Streptomyces rimosus subsp. rimosus WC-3908
BGC0000517.4 |  | 0.55 | ribosomal | haloduracin β, haloduracin α | Bacillus halodurans C-125
BGC0000554.4 |  | 0.51 | ribosomal | SRO15-3108 | Streptomyces filamentosus NRRL 15998
BGC0000525.5 |  | 0.50 | ribosomal | lichenicidin VK21 A1, lichenicidin VK21 A2 | Bacillus licheniformis
BGC0001210.5 |  | 0.49 | ribosomal | pseudomycoicidin | Bacillus pseudomycoides DSM 12442
BGC0000626.3 |  | 0.49 | ribosomal | thuricin | Bacillus thuringiensis
BGC0000563.4 |  | 0.48 | ribosomal | venezuelin | Streptomyces venezuelae ATCC 10712
BGC0001311.5 |  | 0.48 | ribosomal | flavecins | Ruminococcus flavefaciens FD-1
BGC0001229.4 |  | 0.48 | ribosomal | SBI-06990 A1, SBI-06989 A2 | Streptomyces bingchenggensis BCW-1
BGC0000528.5 |  | 0.48 | ribosomal | michiganin A | Clavibacter michiganensis subsp. michiganensis NCPPB 382

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 ET495_RS04135

ET495_RS04095
Leader:
MDQPAILVPAVVLAAA
ET495_RS04095
Leader:
MDQPAILVPAVVLAAA
Shared core:
F V V Y C Y V E L A R A T E V R F L P K W G W A V A V A I S V P L G G I V Y L L A G R S E T G S D A
Core with dehydrations:
F V V Y Cys Y V E L A R A Dhb E V R F L P K W G W A V A V A I Dha V P L G G I V Y L L A G R Dha E Dhb G Dha D A

#### antiSMASH-DB 4.0 matches for ET495_RS04095

100.0%
NZ_CP035495.1 and 1 other:
NZ_CP035495.1 Lanthipeptides: ET495_RS04095_lanthipeptide
Lanthipeptides: ET495_RS04095_lanthipeptide
1
F V V Y C Y V E L A R A T E V R F L P K W G W A V A V A I S V P L G G I V Y L L A G R S E T G S D A
50
F V V Y C Y V E L A R A T E V R F L P K W G W A V A V A I S V P L G G I V Y L L A G R S E T G S D A
1
F V V Y C Y V E L A R A T E V R F L P K W G W A V A V A I S V P L G G I V Y L L A G R S E T G S D A
50
12.0%
NZ_KB235919.1:
Lanthipeptides: allorf_340400_340522_lanthipeptide
16
R F L P K W G
22
R F L P K+G
5
R F L P K F G
11
ET495_RS17535
Leader:
MNNAYAAAGDVTLELTAHQVDAEADATAGG
ET495_RS17535
Leader:
MNNAYAAAGDVTLELTAHQVDAEADATAGG
Shared core:
L W T I P G T S T I G R F C T L S W E C Q G I A C G
Core with dehydrations:
L W Dhb I P G Dhb Dha Dhb I G R F Cys Dhb L Dha W E Cys Q G I A Cys G

#### antiSMASH-DB 4.0 matches for ET495_RS17535

100.0%
NZ_CP035495.1 and 1 other:
NZ_CP035495.1 Lanthipeptides: ET495_RS17535_lanthipeptide
Lanthipeptides: ET495_RS17535_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q G I A C G
26
L W T I P G T S T I G R F C T L S W E C Q G I A C G
1
L W T I P G T S T I G R F C T L S W E C Q G I A C G
26
62.1%
NZ_LR027842.1:
Lanthipeptides: E0E39_RS15855_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q G I A C G
26
L W T+P G T T I G C T+S W E C G C G
1
L W T V P G T R T I G A V C T V S W E C H G F I C G
26
55.2%
NZ_CP025227.1:
Lanthipeptides: allorf_0999194_0999376_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C
20
L W T+P T S T I G C T L S W E C
1
L W T V P T T S T I G L V C T L S W E C
20
with 90 more sequence matches
Only the first 10 are displayed here.
53.1%
NZ_CP051884.1 and 2 others:
NZ_CP051884.1 Lanthipeptides: HGK68_RS15160_lanthipeptide NZ_CP051884.1 Lanthipeptides: HGK68_RS15160_lanthipeptide
Lanthipeptides: HGK68_RS15160_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q G I A C
25
+W T I P G T T I G F C T+S+E C G C
5
I W T I P G T K T I G A F C T I S Y E C W G F V C
29
50.0%
NC_014643.1 and 2 others:
NZ_KV795763.1 Lanthipeptides: HMPREF2554_RS11600_lanthipeptide NZ_KV804818.1 Lanthipeptides: HMPREF2804_RS11135_lanthipeptide
Lanthipeptides: HMPREF0733_RS11155_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q G I A C G
26
L+T+P G T+T+G F C T+S W E C G C G
8
L F T V P G T T T V G H F C T I S W E C S G F I C G
33
48.4%
NZ_QGGR01000002.1:
Lanthipeptides: BC793_RS05490_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q
21
L+T+P G T S T I G C T+S W E C
1
L Y T V P G T S T I G W I C T V S W E C S
21
45.2%
NZ_PVMZ01000043.1 and 1 other:
NZ_PVMZ01000043.1 Lanthipeptides: CLV67_RS49720_lanthipeptide
Lanthipeptides: CLV67_RS49720_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q
21
L+T+P G T S T I G C T S+E C
1
L F T V P G T S T I G Y V C T Y S Y E C S
21
38.9%
NZ_JAPVBQ010000001.1:
Lanthipeptides: O2V63_RS05740_lanthipeptide
1
L W T I P G T S T I G R F C T L S W E C Q G I A C G
26
L+T T T+G C T+S W E C G C G
8
L F T F K T T K T V G A V C T I S W E C S G R I C G
33
38.5%
NC_016582.1 and 1 other:
NC_016582.1 Lanthipeptides: SBI_RS34375_lanthipeptide
Lanthipeptides: SBI_RS34375_lanthipeptide
6
G T S T I G R F C T L S W E C Q
21
G G F C T L S E C Q
1
G N G G F G L F C T L S K E C Q
16
38.5%
NZ_BORO01000007.1:
Lanthipeptides: KI343_RS07745_lanthipeptide
2
W T I P G T S T I G R F C T L S W E C
20
W T+P G G C T L+ E C
9
W T L P G G---G G V C T L T S E C
24
37.0%
NZ_CP071875.1:
Lanthipeptides: J4I02_RS02880_lanthipeptide
4
I P G T S T I G R F C T L S W E C Q G
22
I P S G C T L+ E C G
3
I P N H S G-G A I C T L T H E C A G
20
34.6%
NC_009480.1 and 10 others:
NZ_CP033724.1 Lanthipeptides: EFE39_RS10220_lanthipeptide NZ_CP047051.1 Lanthipeptides: GRD74_RS10365_lanthipeptide NZ_CP047054.1 Lanthipeptides: GRD61_RS10460_lanthipeptide NZ_CP053860.1 Lanthipeptides: DQP62_RS10825_lanthipeptide NZ_CP076352.1 Lanthipeptides: KN218_RS09900_lanthipeptide NZ_CP085137.1 Lanthipeptides: LHJ48_RS10290_lanthipeptide NZ_CP085140.1 Lanthipeptides: LHJ47_RS10305_lanthipeptide NZ_CP095274.1 Lanthipeptides: MU580_RS10460_lanthipeptide NZ_PSTW01000024.1 Lanthipeptides: C5C03_RS09675_lanthipeptide NZ_SISU01000002.1 Lanthipeptides: EOG37_RS09890_lanthipeptide
Lanthipeptides: CMM_RS10575_lanthipeptide
8
S T I G R F C T L S W E C Q G I A C G
26
S+ G C T L+ E C I C
1
S S S G W L C T L T I E C G T I I C A
19
34.6%
NC_017912.1 and 14 others:
NZ_CP007242.1 Lanthipeptides: KHU1_RS17410_lanthipeptide NZ_CP031424.1 Lanthipeptides: DXX91_RS18935_lanthipeptide NZ_CP032855.1 Lanthipeptides: D9C11_RS10440_lanthipeptide NZ_CP043809.1 Lanthipeptides: ETZ92_RS14260_lanthipeptide NZ_CP049904.1 Lanthipeptides: V753_RS18470_lanthipeptide NZ_CP053764.1 Lanthipeptides: HPQ66_RS18325_lanthipeptide NZ_CP061938.1 Lanthipeptides: IEN91_RS19800_lanthipeptide NZ_CP063768.1 Lanthipeptides: IM712_RS05205_lanthipeptide NZ_CP087137.1 Lanthipeptides: LOK79_RS18580_lanthipeptide NZ_CP092383.1 Lanthipeptides: MID02_RS19390_lanthipeptide NZ_JAEACM010000001.1 Lanthipeptides: I5F15_RS04355_lanthipeptide NZ_JAJNPN010000015.1 Lanthipeptides: LQ568_RS13285_lanthipeptide NZ_SDKF01000002.1 Lanthipeptides: EUA41_RS09950_lanthipeptide NZ_VDUT01000007.1 Lanthipeptides: FS412_RS14545_lanthipeptide
Lanthipeptides: MUS_RS20065_lanthipeptide
2
W T I P G T S T I G R F C T L S W E C
20
+T+P G G C T L+ E C
9
F T L P G G---G G V C T L T S E C
24

#### MIBiG 4.0 matches for ET495_RS17535

23.3%
BGC0002110.3 (QKV49893.1):
Lanthipeptide: birimositide
11
G R F C T L S W E C Q
21
G +C T L+ E C Q
16
G G W C T L T K E C Q
26
23.1%
BGC0000563.4 (AEA03263.1):
Lanthipeptide: venezuelin
10
I G R F C T L S W E C Q G I A C G
26
+G L+ C G I+C
6
V G L L T L L N T V C I G I S C A
22
21.4%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
11
G R F C T L S W E C Q
21
G +C T L+ E C
14
G A Y C T L T V E C M
24
with 1 more sequence matches
17.9%
BGC0001229.4 (SBI_06990):
Lanthipeptide: SBI-06990 A1 or SBI-06989 A2
14
C T L S W E C Q
21
C T L S E C Q
28
C T L S K E C Q
35
allorf_0927515_0927718
Leader:
MSRYRGADSGNCSERGSTHGG
allorf_0927515_0927718
Leader:
MSRYRGADSGNCSERGSTHGG
Shared core:
T D R R H I D S R R S D R C A L C L L F Q A P S R G L A T A P S C A A R Q Y D H N A R F G S
Core with dehydrations:
Dhb D R R H I D Dha R R Dha D R Cys A L Cys L L F Q A P Dha R G L A Dhb A P Dha Cys A A R Q Y D H N A R F G Dha

#### antiSMASH-DB 4.0 matches for allorf_0927515_0927718

100.0%
NZ_CP035495.1 and 1 other:
NZ_CP035495.1 Lanthipeptides: allorf_0927515_0927718_lanthipeptide
Lanthipeptides: allorf_0927515_0927718_lanthipeptide
1
T D R R H I D S R R S D R C A L C L L F Q A P S R G L A T A P S C A A R Q Y D H N A R F G S
46
T D R R H I D S R R S D R C A L C L L F Q A P S R G L A T A P S C A A R Q Y D H N A R F G S
1
T D R R H I D S R R S D R C A L C L L F Q A P S R G L A T A P S C A A R Q Y D H N A R F G S
46
28.3%
NZ_CP023690.1:
Lanthipeptides: allorf_9606496_9606669_lanthipeptide
8
S R R S D R C A L C L L F Q A P S R G L A T A P S C A A R Q
37
S R +R A C P R A A P S A R+
5
S A R P E R A A S C P T P S G P R R P R A I A P S G R A R K
34
15.2%
NZ_AP023359.1:
Lanthipeptides: Prubr_RS32600_lanthipeptide
20
F Q A P S R G L A T A P S
32
+ P S R A T A P+
3
W L V P S R S Y A T A P A
15

#### MIBiG 4.0 matches for allorf_0927515_0927718

17.4%
BGC0000517.4 (BAB04173.1):
Lanthipeptide: haloduracin β or haloduracin α
5
H I D S R R S D R C A L C L L F Q A P S R G L A T A P S C
33
+I R ++ A C L + P S C
5
N I S C R L G N K G A Y C T L------T V E C M P S C
27
allorf_0930927_0931019
Leader:
MSGGATQLPGA
allorf_0930927_0931019
Leader:
MSGGATQLPGA
Shared core:
C W L G R W R T L V T R V D V T A C V
Core with dehydrations:
Cys W L G R W R Dhb L V Dhb R V D V Dhb A Cys V

#### antiSMASH-DB 4.0 matches for allorf_0930927_0931019

100.0%
NZ_CP035495.1 and 1 other:
NZ_CP035495.1 Lanthipeptides: allorf_0930927_0931019_lanthipeptide
Lanthipeptides: allorf_0930927_0931019_lanthipeptide
1
C W L G R W R T L V T R V D V T A C V
19
C W L G R W R T L V T R V D V T A C V
1
C W L G R W R T L V T R V D V T A C V
19
22.7%
NZ_CP053549.1 and 3 others:
NZ_JADKSM010000003.1 Lassopeptides: ITJ61_RS18070_lassopeptide NZ_PSXX01000017.1 Lassopeptides: C5E05_RS18625_lassopeptide NZ_PSXZ01000003.1 Lassopeptides: C5E07_RS02640_lassopeptide
Lassopeptides: HMI60_RS00570_lassopeptide
1
C W L G R W R T L
9
W G R W R +
2
V W F G R W R D I
10
18.2%
NZ_JADG01000011.1:
Lanthipeptides: P696_RS0120030_lanthipeptide
3
L G R W R T L V T R V D V T A C
18
L G W V V D+ A C
9
L G Y W T E G V A A V D I Y A C
24
with 1 more sequence matches
14.5%
NZ_BMRD01000003.1 and 1 other:
NZ_JANBBD010000039.1 Lanthipeptides: BS35_RS35910_lanthipeptide
Lanthipeptides: IEZ14_RS08160_lanthipeptide
3
L G R W R T L V T R V D V T A C V
19
L G W V V D A C
22
L G Y W T E G V A A V D A Y A C A
38
allorf_0931728_0931856
Leader:
MPSGDSVAALAAA
allorf_0931728_0931856
Leader:
MPSGDSVAALAAA
Shared core:
C R R A R D A A G Q R S G A Q R R R P G S R R P Q Y P S P
Core with dehydrations:
Cys R R A R D A A G Q R Dha G A Q R R R P G Dha R R P Q Y P Dha P

#### antiSMASH-DB 4.0 matches for allorf_0931728_0931856

100.0%
NZ_CP035495.1 and 1 other:
NZ_CP035495.1 Lanthipeptides: allorf_0931728_0931856_lanthipeptide
Lanthipeptides: allorf_0931728_0931856_lanthipeptide
1
C R R A R D A A G Q R S G A Q R R R P G S R R P Q Y P S P
29
C R R A R D A A G Q R S G A Q R R R P G S R R P Q Y P S P
1
C R R A R D A A G Q R S G A Q R R R P G S R R P Q Y P S P
29
30.0%
NZ_JACHJY010000017.1:
Lanthipeptides: GGE06_RS39690_lanthipeptide
4
A R D A A G Q R S G A Q R R R P G S R R P Q Y P S P
29
A +R+ A R P +R P +P P
2
A L S L V D R R A L A L T T R P A N R C P A F P P P
27

#### 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:
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 19.00 out of 20.47
Confidence: strong
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.25 out of 20.47
Confidence: medium
VqsM
Description: Regulator of quorum-sensing signalling systems
Species: Pseudomonas aeruginosa PAO1
Score: 18.25 out of 20.47
Confidence: medium
RpoN
Description: Regulator of nitrogen assimilation and virulence
Species: Salmonella & Vibrio sp.
Score: 18.15 out of 18.46
Confidence: strong
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 25.16 out of 30.11
Confidence: medium
CelR
Description: Cellobiose uptake repressor
Species: Streptomyces coelicolor
Score: 24.07 out of 30.11
Confidence: medium
Additional weak hits (11):
BldD
Description: Development and antibiotic global regulator
Species: Streptomyces coelicolor
Score: 18.76 out of 23.43
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.74 out of 30.22
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.19 out of 24.78
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes
Species: Streptomyces coelicolor
Score: 16.90 out of 20.01
Confidence: weak
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 19.44 out of 26.85
Confidence: weak
HipB
Description: Bacterial antitoxin HipB
Species: Escherichia coli BL21(DE3)
Score: 19.59 out of 33.73
Confidence: weak
MexT
Description: Global virulence regulator
Species: Pseudomonas aeruginosa PAO1
Score: 16.40 out of 21.84
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.25 out of 27.18
Confidence: weak
PerR
Description: Peroxide regulator
Species: Bacillus & Staphylococcus sp.
Score: 13.93 out of 28.14
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes
Species: Streptomyces coelicolor
Score: 20.43 out of 27.18
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.

ET495_RS04095 - Class II
  Cleavage pHMM score: -5.80
  RODEO score: 0
  Monoisotopic mass: 5308.9 Da
  Molecular weight: 5312.1 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5330.1 Da N = 1
    5348.2 Da N = 2
    5366.2 Da N = 3
    5384.2 Da N = 4
ET495_RS17535 - Class II
  Cleavage pHMM score: 0.50
  RODEO score: 0
  Monoisotopic mass: 2691.3 Da
  Molecular weight: 2693.1 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2711.1 Da N = 1
    2729.1 Da N = 2
    2747.2 Da N = 3
allorf_0927515_0927718 - Class II
  Cleavage pHMM score: -1.10
  RODEO score: 0
  Monoisotopic mass: 5019.5 Da
  Molecular weight: 5022.6 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5040.6 Da N = 1
    5058.6 Da N = 2
    5076.6 Da N = 3
    5094.6 Da N = 4
allorf_0930927_0931019 - Class II
  Cleavage pHMM score: -2.40
  RODEO score: 0
  Monoisotopic mass: 2179.2 Da
  Molecular weight: 2180.6 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2198.6 Da N = 1
allorf_0931728_0931856 - Class II
  Cleavage pHMM score: -6.40
  RODEO score: 0
  Monoisotopic mass: 3238.7 Da
  Molecular weight: 3240.6 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3258.6 Da N = 1
    3276.6 Da N = 2
ET495_RS04095 - Class II
  Cleavage pHMM score: -5.80
  RODEO score: 0
  Monoisotopic mass: 5308.9 Da
  Molecular weight: 5312.1 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5330.1 Da N = 1
    5348.2 Da N = 2
    5366.2 Da N = 3
    5384.2 Da N = 4
ET495_RS17535 - Class II
  Cleavage pHMM score: 0.50
  RODEO score: 0
  Monoisotopic mass: 2691.3 Da
  Molecular weight: 2693.1 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2711.1 Da N = 1
    2729.1 Da N = 2
    2747.2 Da N = 3
allorf_0927515_0927718 - Class II
  Cleavage pHMM score: -1.10
  RODEO score: 0
  Monoisotopic mass: 5019.5 Da
  Molecular weight: 5022.6 Da
  Number of bridges: 3
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    5040.6 Da N = 1
    5058.6 Da N = 2
    5076.6 Da N = 3
    5094.6 Da N = 4
allorf_0930927_0931019 - Class II
  Cleavage pHMM score: -2.40
  RODEO score: 0
  Monoisotopic mass: 2179.2 Da
  Molecular weight: 2180.6 Da
  Number of bridges: 2
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2198.6 Da N = 1
allorf_0931728_0931856 - Class II
  Cleavage pHMM score: -6.40
  RODEO score: 0
  Monoisotopic mass: 3238.7 Da
  Molecular weight: 3240.6 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    3258.6 Da N = 1
    3276.6 Da N = 2

TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---
CelR | Cellobiose uptake repressor
RpoN | Regulator of nitrogen assimilation and virulence
VqsM | Regulator of quorum-sensing signalling systems

NZ_CP035495.1 - Region 2 - 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: 1,349,948 - 1,371,045 nt. (total: 21,098 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
TTA codons
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: acyltransferase
ET495_RS06260: acyltransferase

smcogs
  SMCOG1141: acyltransferase

Ligases: ligase synthetase
ET495_RS06235: Polyprenyl synthetase

smcogs
  SMCOG1182: Polyprenyl synthetase

ET495_RS06275: AMP-dependent synthetase and ligase

smcogs
  SMCOG1002: AMP-dependent synthetase and ligase

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

Reference | terpene-precursor | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002274.2 |  | 0.56 | NRPS | aspulvinone H, aspulvinone B1 | Aspergillus terreus NIH2624
BGC0002193.2 |  | 0.56 | other (other) | phenguignardic acid | Aspergillus terreus NIH2624
BGC0000677.5 |  | 0.42 | terpene | cyclooctatin | Streptomyces melanosporofaciens
BGC0001911.3 |  | 0.38 | terpene | raimonol | Streptomyces anulatus
BGC0002309.2 |  | 0.37 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000936.5 |  | 0.37 | other (other) | pyocyanine | Pseudomonas aeruginosa PAO1
BGC0001456.3 |  | 0.37 | terpene | isorenieratene | Streptomyces argillaceus
BGC0001910.4 |  | 0.36 | terpene | cyslabdan A, cyslabdan B, cyslabdan C | Streptomyces cyslabdanicus
BGC0000664.5 |  | 0.36 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000649.3 |  | 0.36 | terpene | carotenoid | Streptomyces griseus subsp. griseus NBRC 13350

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0002274.2 |  | 0.56 | NRPS | aspulvinone H, aspulvinone B1 | Aspergillus terreus NIH2624
BGC0002193.2 |  | 0.56 | other (other) | phenguignardic acid | Aspergillus terreus NIH2624
BGC0000677.5 |  | 0.42 | terpene | cyclooctatin | Streptomyces melanosporofaciens
BGC0001911.3 |  | 0.38 | terpene | raimonol | Streptomyces anulatus
BGC0002309.2 |  | 0.37 | terpene | cattleyene | Streptomyces cattleya NRRL 8057 = DSM 46488
BGC0000936.5 |  | 0.37 | other (other) | pyocyanine | Pseudomonas aeruginosa PAO1
BGC0001456.3 |  | 0.37 | terpene | isorenieratene | Streptomyces argillaceus
BGC0001910.4 |  | 0.36 | terpene | cyslabdan A, cyslabdan B, cyslabdan C | Streptomyces cyslabdanicus
BGC0000664.5 |  | 0.36 | terpene | isorenieratene | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000649.3 |  | 0.36 | terpene | carotenoid | Streptomyces griseus subsp. griseus NBRC 13350

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

No significant matches found.

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

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

Genes with terpene domains:
ET495_RS06235: PT_FPPS_like
Domain 1 (47 - 352): 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:
CRP
Description: Cyclic AMP receptor protein
Species: Escherichia coli str. K-12 substr. MG1655
Score: 17.13 out of 19.26
Confidence: medium
Additional weak hits (5):
RutR
Description: Regulator of the pyrimidine and purine metabolism
Species: Escherichia coli str. K-12 substr. MG1655
Score: 20.55 out of 26.85
Confidence: weak
ClgR
Description: Caseinolytic protease gene regulator
Species: Corynebacterium glutamicum ATCC 13032
Score: 21.97 out of 30.22
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.30 out of 28.19
Confidence: weak
ZuR variant 2
Description: Zinc-responsive repressor
Species: Pseudomonas protegens Pf-5
Score: 17.00 out of 33.14
Confidence: weak
LexA variant 2
Description: Repressor of DNA damage response
Species: Bacillus subtilis subsp. subtilis str. 168
Score: 18.83 out of 24.78
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
--- | ---
CRP | Cyclic AMP receptor protein

NZ_CP035495.1 - Region 3 - polyhalogenated-pyrrole
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: 3,627,739 - 3,663,877 nt. (total: 36,139 nt) Show pHMM detection rules used
polyhalogenated-pyrrole: (Abhydrolase_6 and Trp_halogenase and (Acyl-CoA_dh_N or Acyl-CoA_dh_M or Acyl-CoA_dh_1) and AMP-binding)

#### Legend:

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

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

No genes match the given filter
Tailoring functions
Tailoring enzymes detected in this region
Oxidoreductases: dehydrogenase oxidoreductase
ET495_RS16505: FAD dependent oxidoreductase

smcogs
  SMCOG1103: FAD dependent oxidoreductase

ET495_RS16520: acyl-CoA dehydrogenase

smcogs
  SMCOG1006: acyl-CoA dehydrogenase

Transferases: halogenase kinase
ET495_RS16510: glycerol kinase

smcogs
  SMCOG1210: glycerol kinase

ET495_RS16550: halogenase

smcogs
  SMCOG1119: halogenase

Hydrolases: hydrolase peptidase
ET495_RS16480: methionine aminopeptidase

smcogs
  SMCOG1172: methionine aminopeptidase

ET495_RS16485: alpha/beta hydrolase fold protein

smcogs
  SMCOG1036: alpha/beta hydrolase fold protein

ET495_RS19540: metallo-beta-lactamase family protein

smcogs
  SMCOG1170: metallo-beta-lactamase family protein

Lyases: dehydratase
ET495_RS16525: L-carnitine dehydratase/bile acid-inducible

smcogs
  SMCOG1189: L-carnitine dehydratase/bile acid-inducible

Ligases: ligase
ET495_RS16540: 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 | polyhalogenated-pyrrole | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001166.5 |  | 0.55 | NRPS | HC-toxin | Alternaria jesenskae
BGC0002193.2 |  | 0.55 | other (other) | phenguignardic acid | Aspergillus terreus NIH2624
BGC0002286.3 |  | 0.55 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4 |  | 0.55 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000649.3 |  | 0.44 | terpene | carotenoid | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000259.3 |  | 0.42 | PKS | prodigiosin | Serratia marcescens
BGC0002071.2 |  | 0.41 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027
BGC0002675.2 |  | 0.41 | PKS | prodigiosin | Pseudoalteromonas rubra
BGC0000260.3 |  | 0.41 | PKS | prodigiosin | Hahella chejuensis KCTC 2396
BGC0002514.3 |  | 0.41 | PKS | julichrome Q6.6 | Streptomyces sampsonii

Reference | Aggregated | Similarity score | Type | Compound(s) | Organism
--- | --- | --- | --- | --- | ---
BGC0001166.5 |  | 0.55 | NRPS | HC-toxin | Alternaria jesenskae
BGC0002193.2 |  | 0.55 | other (other) | phenguignardic acid | Aspergillus terreus NIH2624
BGC0002286.3 |  | 0.55 | NRPS | ririwpeptide A, ririwpeptide B, ririwpeptide C | Photorhabdus laumondii subsp. laumondii TTO1
BGC0001641.4 |  | 0.55 | NRPS | kolossin | Photorhabdus laumondii subsp. laumondii TTO1
BGC0000649.3 |  | 0.44 | terpene | carotenoid | Streptomyces griseus subsp. griseus NBRC 13350
BGC0000259.3 |  | 0.42 | PKS | prodigiosin | Serratia marcescens
BGC0002071.2 |  | 0.41 | NRPS | virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D | Pseudomonas sp. QS1027
BGC0002675.2 |  | 0.41 | PKS | prodigiosin | Pseudoalteromonas rubra
BGC0000260.3 |  | 0.41 | PKS | prodigiosin | Hahella chejuensis KCTC 2396
BGC0002514.3 |  | 0.41 | PKS | julichrome Q6.6 | Streptomyces sampsonii

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.
No hits above weak threshold.
Weak hits (10):
ColR
Description: Phenol-responsive regulator
Species: Pseudomonas putida KT2440
Score: 18.58 out of 30.25
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor
Species: Streptomyces coelicolor
Score: 20.43 out of 27.04
Confidence: weak
FuR variant 1
Description: Ferric Uptake Regulator
Species: Bacillus, Pseudomonas, Yersinia sp.
Score: 15.96 out of 29.38
Confidence: weak
GnfM
Description: Regulator of nitrogen-fixation genes
Species: Geobacter sulfurreducens PCA
Score: 19.12 out of 27.55
Confidence: weak
DosR
Description: Hypoxia stress response regulator
Species: Mycobacterium tuberculosis H37Rv
Score: 23.64 out of 29.51
Confidence: weak
LexA variant 1
Description: Repressor of DNA damage response
Species: Streptomyces coelicolor
Score: 20.88 out of 29.65
Confidence: weak
LexA variant 3
Description: Repressor of DNA damage response
Species: Escherichia coli str. K-12 substr. MG1655
Score: 18.53 out of 32.93
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor
Species: Streptomyces coelicolor
Score: 18.94 out of 22.40
Confidence: weak
ZuR variant 1
Description: Zinc-responsive repressor
Species: Streptomyces coelicolor
Score: 16.48 out of 28.19
Confidence: weak
NrtR
Description: NAD synthesis repressor
Species: Streptomyces coelicolor
Score: 19.85 out of 35.63
Confidence: weak
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models

Regulator | Description
--- | ---