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Overview
1.1
4.1

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

gnlProkkaPDIHLDON_1 (original name was: gnl|Prokka|PDIHLDON_1)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | ranthipeptide | 281,215 | 302,880 |

gnlProkkaPDIHLDON_4 (original name was: gnl|Prokka|PDIHLDON_4)

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 4.1 | cyclic-lactone-autoinducer,lanthipeptide-class-ii | 49,292 | 89,540 |

Region | Type | From | To | Most similar known cluster | Similarity
--- | --- | --- | --- | --- | ---
Region 1.1 | ranthipeptide | 281,215 | 302,880 |
Region 4.1 | cyclic-lactone-autoinducer,lanthipeptide-class-ii | 49,292 | 89,540 |

No secondary metabolite regions were found in these records:
  gnlProkkaPDIHLDON_2 (original name was: gnl|Prokka|PDIHLDON_2)
  gnlProkkaPDIHLDON_3 (original name was: gnl|Prokka|PDIHLDON_3)
  gnlProkkaPDIHLDON_5 (original name was: gnl|Prokka|PDIHLDON_5)
  gnlProkkaPDIHLDON_6 (original name was: gnl|Prokka|PDIHLDON_6)
  gnlProkkaPDIHLDON_7 (original name was: gnl|Prokka|PDIHLDON_7)
  gnlProkkaPDIHLDON_8 (original name was: gnl|Prokka|PDIHLDON_8)
  gnlProkkaPDIHLDON_9 (original name was: gnl|Prokka|PDIHLDON_9)
  gnlProkkaPDIHLDON_10 (original name was: gnl|Prokka|PDIHLDON_10)
  gnlProkkaPDIHLDON_11 (original name was: gnl|Prokka|PDIHLDON_11)
  gnlProkkaPDIHLDON_12 (original name was: gnl|Prokka|PDIHLDON_12)
  gnlProkkaPDIHLDON_13 (original name was: gnl|Prokka|PDIHLDON_13)
  gnlProkkaPDIHLDON_14 (original name was: gnl|Prokka|PDIHLDON_14)
  gnlProkkaPDIHLDON_15 (original name was: gnl|Prokka|PDIHLDON_15)
  gnlProkkaPDIHLDON_16 (original name was: gnl|Prokka|PDIHLDON_16)
  gnlProkkaPDIHLDON_17 (original name was: gnl|Prokka|PDIHLDON_17)
  gnlProkkaPDIHLDON_18 (original name was: gnl|Prokka|PDIHLDON_18)
  gnlProkkaPDIHLDON_19 (original name was: gnl|Prokka|PDIHLDON_19)
  gnlProkkaPDIHLDON_20 (original name was: gnl|Prokka|PDIHLDON_20)
  gnlProkkaPDIHLDON_23 (original name was: gnl|Prokka|PDIHLDON_23)
  gnlProkkaPDIHLDON_29 (original name was: gnl|Prokka|PDIHLDON_29)
  gnlProkkaPDIHLDON_30 (original name was: gnl|Prokka|PDIHLDON_30)
  gnlProkkaPDIHLDON_31 (original name was: gnl|Prokka|PDIHLDON_31)
  gnlProkkaPDIHLDON_32 (original name was: gnl|Prokka|PDIHLDON_32)
  gnlProkkaPDIHLDON_33 (original name was: gnl|Prokka|PDIHLDON_33)
  gnlProkkaPDIHLDON_34 (original name was: gnl|Prokka|PDIHLDON_34)

Compact view
gnlProkkaPDIHLDON_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: 281,215 - 302,880 nt. (total: 21,666 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
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
KnownClusterBlast
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
Similar known gene clusters from MIBiG 3.1
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No matches found.

gnlProkkaPDIHLDON_4 - Region 1 - cyclic-lactone-autoinducer,lanthipeptide-class-ii
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key.
More detailed help is available here.
Download region GenBank file
Download region SVG
Location: 49,292 - 89,540 nt. (total: 40,249 nt) Show pHMM detection rules used
cyclic-lactone-autoinducer: (TIGR04223 or AgrB)
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

#### Legend:

core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
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
KnownClusterBlast
Lanthipeptides
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
Similar known gene clusters from MIBiG 3.1
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.
Click on reference genes to show details of similarities to genes within the current region.
Click on an accession to open that entry in the MiBIG database.

No 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 ctg4_74

ctg4_88
Leader:
MAKTKAEEKALNLDQILFN
Core:
C R D Y L R A A R N S G S F F E K R D I P R S T A P K F S K R S W N R
Core with dehydrations:
Cys R D Y L R A A R N Dha G Dha F F E K R D I P R Dha Dhb A P K F Dha K R Dha W N R

#### antiSMASH-DB 4.0 matches for ctg4_88

100.0% NZ_JAQCXO010000012.1: Lanthipeptides: PGY55_RS14570_lanthipeptide
1
C R D Y L R A A R N S G S F F E K R D I P R S T A P K F S K R S W N R
35
C R D Y L R A A R N S G S F F E K R D I P R S T A P K F S K R S W N R
1
C R D Y L R A A R N S G S F F E K R D I P R S T A P K F S K R S W N R
35
15.0% NZ_CP077072.1: Lanthipeptides: allorf_4753534_4753761_lanthipeptide
7
A A R N S G S F F E K R D I P R
22
A +G+ F E I P+
10
C A G T T G A I F E N I S I P K
25
allorf_071718_071867
Leader:
MEKICNKTGFIHNNMSPNTGLPASGDISERMIAA
Core:
Y S H H I C K L T I S Q S L L
Core with dehydrations:
Y Dha H H I Cys K L Dhb I Dha Q Dha L L

#### antiSMASH-DB 4.0 matches for allorf_071718_071867

100.0% NZ_JAQCXO010000012.1 and 1 other:
NZ_QVFB01000013.1 Lanthipeptides: allorf_96380_96529_lanthipeptide
Lanthipeptides: allorf_071718_071867_lanthipeptide
1
Y S H H I C K L T I S Q S L L
15
Y S H H I C K L T I S Q S L L
1
Y S H H I C K L T I S Q S L L
15
allorf_073029_073127
Leader:
MVLDLCCESSQTSGM
Core:
L L P E G C F L Q F F S R I L C K
Core with dehydrations:
L L P E G Cys F L Q F F Dha R I L Cys K

#### antiSMASH-DB 4.0 matches for allorf_073029_073127

100.0% NZ_JAQCXO010000012.1: Lanthipeptides: allorf_073029_073127_lanthipeptide
1
L L P E G C F L Q F F S R I L C K
17
L L P E G C F L Q F F S R I L C K
1
L L P E G C F L Q F F S R I L C K
17
16.7% NZ_CP072563.1 and 1 other:
NZ_CP072563.1 Lanthipeptides: allorf_3258000_3258125_lanthipeptide
Lanthipeptides: allorf_3258000_3258125_lanthipeptide
1
L L P E G C F L Q F F S R I L
15
+L P E C L + +
8
I L P E S C V L H S V R K A V
22
allorf_076456_076569
Leader:
MFIGKPPIFIGVFQGG
Core:
T F I R P A I S N V P T S P A L F P C G S
Core with dehydrations:
Dhb F I R P A I Dha N V P Dhb Dha P A L F P Cys G Dha

#### antiSMASH-DB 4.0 matches for allorf_076456_076569

35.7% NZ_JAAZQJ010000005.1: Lanthipeptides: allorf_070968_071141_lanthipeptide
4
R P A I S N V P T S P A L F P C
19
R P I P T S A L P C
13
R P T I G P A P T S-A L E P C
27
28.6% NZ_BMQK01000012.1: Lanthipeptides: IEZ04_RS23130_lanthipeptide
8
S N V P T S P A L F P C G
20
+N P+ +L F C G
9
N N R P S D I S L F A C G
21
allorf_076585_076677
Leader:
MERTSLADG
Core:
H R C G H G R Y P A D A G S C P A S D W W
Core with dehydrations:
H R Cys G H G R Y P A D A G Dha Cys P A Dha D W W
allorf_076611_076754
Leader:
MQSRSLHPTDLQHHRQPLPQPEAVDRHHQSDAG
Core:
Q D P A S A G Y R P C P H L
Core with dehydrations:
Q D P A Dha A G Y R P Cys P H L

#### antiSMASH-DB 4.0 matches for allorf_076611_076754

33.3% NZ_JPLW01000002.1: Lanthipeptides: allorf_1064250_1064342_lanthipeptide
4
A S A G Y R P C P
12
A S G+R P C P
2
A S N G H R P C P
10
20.7% NZ_SLWS01000002.1 and 3 others:
NZ_SLWS01000002.1 Lanthipeptides: allorf_0483867_0484046_lanthipeptide NZ_SLWS01000002.1 Lanthipeptides: allorf_0483867_0484046_lanthipeptide NZ_SLWS01000002.1 Lanthipeptides: allorf_0483867_0484046_lanthipeptide
Lanthipeptides: allorf_0483867_0484046_lanthipeptide
5
S A G Y R P C
11
S+G Y R P C
19
S S G Y R P C
25
16.7% NZ_CP019286.1: Lanthipeptides: allorf_089957_090166_lanthipeptide
5
S A G Y R P C P H
13
+A R P C P
3
T A A V R P C P R
11
with 2 more sequence matches
13.0% NZ_CP008953.1: Lanthipeptides: allorf_3865033_3865224_lanthipeptide
4
A S A G Y R P C P H L
14
A S G+R P C P +
35
A S N G H R P C P A V
45
12.2% NZ_FMXV01000009.1: Lanthipeptides: allorf_153763_153945_lanthipeptide
4
A S A G Y R P C P
12
A S+G R P C
25
A S S G T R P C T
33
allorf_076625_076846
Leader:
MGGIPRMPDLVQRQIGGDDQRLPAA
Core:
V A A V Y D V V D P L D A G C A I A S L K V D R R F I K I W R K G R G F S C K K Y G F M I R L L
Core with dehydrations:
V A A V Y D V V D P L D A G Cys A I A Dha L K V D R R F I K I W R K G R G F Dha Cys K K Y G F M I R L L

#### antiSMASH-DB 4.0 matches for allorf_076625_076846

16.7% NC_014622.2 and 4 others:
NC_017542.1 Lanthipeptides: PPM_RS22255_lanthipeptide NZ_CP029370.1 Lanthipeptides: DI243_RS20965_lanthipeptide NZ_CP034141.1 Lanthipeptides: EGM68_RS21660_lanthipeptide NZ_PNXP01000027.1 Lanthipeptides: C1I59_RS20675_lanthipeptide
Lanthipeptides: PPSC2_RS50115_lanthipeptide
14
G C A I A S L K V D R R F I K I W R K G
33
G C A++S+ D R K G
12
G C A V S S V N E D T R K T T A A H K G
31
14.6% NZ_CP041244.1: Lanthipeptides: allorf_9037860_9038039_lanthipeptide
23
D R R F I K I W R K G R G F S C K
39
R R R G R G +C+
6
P R R L S S N P R A G R G V T C R
22
10.4% NZ_SNYN01000018.1: Lassopeptides: EV190_RS23505_lassopeptide
30
W R K G R G F S C
38
W++G R G F
1
W Q Q G R G F E V
9
allorf_079021_079083
Leader:
MRQTLNNIYYA
Core:
S N R S H N Q R C
Core with dehydrations:
Dha N R Dha H N Q R Cys

#### antiSMASH-DB 4.0 matches for allorf_079021_079083

100.0% NZ_JAQCXO010000012.1: Lanthipeptides: allorf_079021_079143_lanthipeptide
1
S N R S H N Q R C
9
S N R S H N Q R C
1
S N R S H N Q R C
9
allorf_080217_080393
Leader:
MCIDTFNSVRKERAACTGT
Core:
V Q I R K G L G F P N K H F A T Q N L H L C A R M H C L P Q Q Y V L F V R N L
Core with dehydrations:
V Q I R K G L G F P N K H F A Dhb Q N L H L Cys A R M H Cys L P Q Q Y V L F V R N L

#### antiSMASH-DB 4.0 matches for allorf_080217_080393

100.0% NZ_JAQCXO010000012.1: Lanthipeptides: allorf_080217_080393_lanthipeptide
1
V Q I R K G L G F P N K H F A T Q N L H L C A R M H C L P Q Q Y V L F V R N L
39
V Q I R K G L G F P N K H F A T Q N L H L C A R M H C L P Q Q Y V L F V R N L
1
V Q I R K G L G F P N K H F A T Q N L H L C A R M H C L P Q Q Y V L F V R N L
39
19.1% NZ_CP110813.1: Lanthipeptides: allorf_3539006_3539200_lanthipeptide
12
K H F A T Q N L H L C A R M H C L P Q Q Y V L F V R N
38
+ A L A +C L +Q F R N
3
R R V A A W P T R L A A E G N C L N R Q A N C F A R N
29
15.4% NZ_CP070496.1: Lanthipeptides: allorf_3773540_3773689_lanthipeptide
15
A T Q N L H L C A R M H C L P Q Q Y V
33
+ +N L C R H P++ +
5
S D K N R D L C R R A H S S P E E S I
23

#### Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine
Lanthipeptides
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.

ctg4_88 - Class II
  Cleavage pHMM score: -5.20
  RODEO score: 0
  Monoisotopic mass: 4094.2 Da
  Molecular weight: 4096.6 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    4114.6 Da N = 1
    4132.6 Da N = 2
    4150.6 Da N = 3
    4168.7 Da N = 4
    4186.7 Da N = 5
allorf_071718_071867 - Class II
  Cleavage pHMM score: -4.50
  RODEO score: 0
  Monoisotopic mass: 1669.9 Da
  Molecular weight: 1671.0 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1689.0 Da N = 1
    1707.0 Da N = 2
    1725.0 Da N = 3
allorf_073029_073127 - Class II
  Cleavage pHMM score: -5.40
  RODEO score: 0
  Monoisotopic mass: 1995.1 Da
  Molecular weight: 1996.4 Da
  Number of bridges: 1
allorf_076456_076569 - Class II
  Cleavage pHMM score: -7.00
  RODEO score: 0
  Monoisotopic mass: 2084.1 Da
  Molecular weight: 2085.4 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    2103.4 Da N = 1
    2121.4 Da N = 2
    2139.5 Da N = 3
    2157.5 Da N = 4
allorf_076585_076677 - Class II
  Cleavage pHMM score: -7.00
  RODEO score: 0
  Monoisotopic mass: 2292.0 Da
  Molecular weight: 2293.5 Da
  Number of bridges: 2
allorf_076611_076754 - Class II
  Cleavage pHMM score: -6.60
  RODEO score: 0
  Monoisotopic mass: 1492.7 Da
  Molecular weight: 1493.6 Da
  Number of bridges: 1
allorf_076625_076846 - Class II
  Cleavage pHMM score: -6.50
  RODEO score: 0
  Monoisotopic mass: 5408.0 Da
  Molecular weight: 5411.5 Da
  Number of bridges: 2
allorf_079021_079083 - Class II
  Cleavage pHMM score: -1.30
  RODEO score: 0
  Monoisotopic mass: 1064.5 Da
  Molecular weight: 1065.1 Da
  Number of bridges: 1
  Alternative weights
    (assuming N unmodified Ser/Thr residues)
    1083.1 Da N = 1
allorf_080217_080393 - Class II
  Cleavage pHMM score: -6.80
  RODEO score: 0
  Monoisotopic mass: 4571.4 Da
  Molecular weight: 4574.4 Da
  Number of bridges: 1