GCA_009881425.1 - 10 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

gnlProkkaGPMMGMEN_106 (original name was: gnl|Prokka|GPMMGMEN_106)

Region	Type	From	To	Most similar known cluster		Similarity
Region 106.1	NRPS	1	47,840	dipeptide aldehydes	NRP	88%

gnlProkkaGPMMGMEN_115 (original name was: gnl|Prokka|GPMMGMEN_115)

Region	Type	From	To	Most similar known cluster		Similarity
Region 115.1	ranthipeptide	28,203	49,719

gnlProkkaGPMMGMEN_122 (original name was: gnl|Prokka|GPMMGMEN_122)

Region	Type	From	To	Most similar known cluster		Similarity
Region 122.1	cyclic-lactone-autoinducer	22,803	39,108

gnlProkkaGPMMGMEN_133 (original name was: gnl|Prokka|GPMMGMEN_133)

Region	Type	From	To	Most similar known cluster		Similarity
Region 133.1	lanthipeptide-class-ii	1	15,007	xantholipin	Polyketide	4%
Region 133.2	cyclic-lactone-autoinducer	17,120	28,139

gnlProkkaGPMMGMEN_161 (original name was: gnl|Prokka|GPMMGMEN_161)

Region	Type	From	To	Most similar known cluster		Similarity
Region 161.1	cyclic-lactone-autoinducer	1	11,161

gnlProkkaGPMMGMEN_166 (original name was: gnl|Prokka|GPMMGMEN_166)

Region	Type	From	To	Most similar known cluster		Similarity
Region 166.1	cyclic-lactone-autoinducer	1	14,331

gnlProkkaGPMMGMEN_167 (original name was: gnl|Prokka|GPMMGMEN_167)

Region	Type	From	To	Most similar known cluster		Similarity
Region 167.1	RRE-containing	2,424	13,784

gnlProkkaGPMMGMEN_169 (original name was: gnl|Prokka|GPMMGMEN_169)

Region	Type	From	To	Most similar known cluster		Similarity
Region 169.1	lanthipeptide-class-ii	1	14,322

gnlProkkaGPMMGMEN_175 (original name was: gnl|Prokka|GPMMGMEN_175)

Region	Type	From	To	Most similar known cluster		Similarity
Region 175.1	cyclic-lactone-autoinducer	1	11,296

Compact view

gnlProkkaGPMMGMEN_106 - Region 1 - NRPS

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Location: 1 - 47,840 nt. (total: 47,840 nt) Show pHMM detection rules used

Region on contig edge.

NRPS: cds(Condensation and (AMP-binding or A-OX))

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core biosynthetic genes

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Gene overview

NRPS/PKS domains

KnownClusterBlast

NRPS/PKS modules

Gene/CDS overview

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

Detailed domain annotation

Selected features only

Show module domains

Similar known gene clusters from MIBiG 3.1

Module view

Legend

NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 0 - 47840:

Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account

Polymer prediction:: (X - X - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

ctg106_18

AMP-binding (20..419): X

nrpys: Leu, Trp

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVLTDGGISK
Nearest Stachelhaus code(s):: Leu or Trp DVLTDGGISK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1033..1421): X

nrpys: Leu, Trp

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic (Ala, Gly, Val, Leu, Ile, Abu, Ival, Ser, Thr, Hpg, Dhpg, Cys, Pro, Hpr)
Large clusters prediction:: Apolar, aliphatic (Gly, Ala, Val, Leu, Ile, Abu, Ival)
Small clusters prediction:: Aliphatic, branched hydrophobic (Val, Leu, Ile, Abu, Ival)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAMFSGAIFK
Nearest Stachelhaus code(s):: Leu or Trp DAMFSGAIFK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (2027..2418): X

nrpys: Leu, Trp

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: Aromatic side chain (Phe, Trp, Ph-Gly, Tyr, bOH-Tyr)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAITTGGVSK
Nearest Stachelhaus code(s):: Leu or Trp DAITTGGVSK (100% 8Å match)
Stachelhaus code match:: 100% (strong)

gnlProkkaGPMMGMEN_115 - Region 1 - ranthipeptide

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Location: 28,203 - 49,719 nt. (total: 21,517 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))))

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core biosynthetic genes

additional biosynthetic genes

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Gene overview

KnownClusterBlast

Gene/CDS overview

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

Similar known gene clusters from MIBiG 3.1

No matches found.

gnlProkkaGPMMGMEN_122 - Region 1 - cyclic-lactone-autoinducer

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Location: 22,803 - 39,108 nt. (total: 16,306 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

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Gene overview

KnownClusterBlast

Gene/CDS overview

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

Similar known gene clusters from MIBiG 3.1

No matches found.

gnlProkkaGPMMGMEN_133 - Region 1 - lanthipeptide-class-ii

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Location: 1 - 15,007 nt. (total: 15,007 nt) Show pHMM detection rules used

Region on contig edge.

lanthipeptide-class-ii: cds(LANC_like and DUF4135)

Legend:

core biosynthetic genes

additional biosynthetic genes

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Gene overview

KnownClusterBlast

Lanthipeptides

Gene/CDS overview

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

Similar known gene clusters from MIBiG 3.1

Lanthipeptide predictions

Lanthipeptide(s) for ctg133_2

ctg133_5

Leader:

MKTCSERNEQRINSLQLSESLEDEIKELDGKNVEAGDVIFT

Core:

TDTSSFLTIVCC

Core with dehydrations:

DhbDDhbDhaDhaFLDhbIVCysCys

antiSMASH-DB 4.0 matches for ctg133_5

100.0% NZ_CP102267.1and 2 others:

NZ_JADMOE010000006.1 Lanthipeptides: I2G55_RS05425_lanthipeptideNZ_LT635469.1 Lanthipeptides: BQ7352_RS14540_lanthipeptide

Lanthipeptides: NQ550_RS10225_lanthipeptide

1

TDTSSFLTIVCC

12

TDTSSFLTIVCC

1

TDTSSFLTIVCC

12

50.0% NZ_CP113781.1: Lanthipeptides: GGADHKLB_RS14125_lanthipeptide

2

DTSSFLTIVCC

12

+ + FLTI+CC

2

NCTHFLTILCC

12

40.0% NZ_AP025566.1: Lanthipeptides: MWL92_RS00840_lanthipeptide

4

SSFLTIVCC

12

+SF TI+CC

7

TSFCTIICC

15

with 10 more sequence matches

33.3% NZ_CP036524.1: Lanthipeptides: LAJLEIBI_RS18025_lanthipeptide

4

SSFLTIVCC

12

++F TI+CC

7

TTFFTIICC

15

31.6% NZ_CP036170.1: Lanthipeptides: HDCHBGLK_RS18795_lanthipeptide

4

SSFLTIVCC

12

+FLTI CC

11

GTFLTIYCC

19

29.2% NZ_CP048626.1: Lanthipeptides: GXM18_RS04600_lanthipeptide

2

DTSSFLTIVCC

12

D +SF TI CC

14

DNASFFTIFCC

24

26.9% NZ_CP070036.1and 3 others:

NZ_JADMPO010000043.1 Lanthipeptides: I2I27_RS16805_lanthipeptideNZ_JADNGF010000061.1 Lanthipeptides: I2E06_RS15650_lanthipeptideNZ_JAQMLK010000037.1 Lanthipeptides: PNW18_RS16660_lanthipeptide

Lanthipeptides: I6K72_RS03970_lanthipeptide

4

SSFLTIVCC

12

S+FLTI CC

18

SAFLTIYCC

26

20.6% NZ_JADPCB010000035.1: Lanthipeptides: I4W51_RS14990_lanthipeptide

3

TSSFLTIVCC

12

T +FLTI+CC

25

TGAFLTILCC

34

17.9% NZ_CP094681.1: Lanthipeptides: K5I26_RS05295_lanthipeptide

1

TDTSSFLTIVCC

12

+D + FLTI CC

28

SDCALFLTIFCC

39

17.9% NZ_JAOQJV010000004.1: Lanthipeptides: OCV65_RS05205_lanthipeptide

4

SSFLTIVCC

12

S FLTI+CC

31

SGFLTIICC

39

17.6% NZ_MCGI01000004.1and 1 other:

NZ_MPDJ01000004.1 Lanthipeptides: BLA28_RS33805_lanthipeptide

Lanthipeptides: BEH84_RS33640_lanthipeptide

1

TDTSSFLTIVCC

12

T+++ FL+I CC

23

TESTPFLSIFCC

34

15.8% NZ_LT969517.1and 1 other:

NZ_QVLV01000012.1 Lanthipeptides: DXC51_RS29565_lanthipeptide

Lanthipeptides: C1733_RS32195_lanthipeptide

1

TDTSSFLTIVCC

12

T ++ FL+I CC

27

TASTGFLSIFCC

38

15.4% NZ_JADNBM010000025.1and 2 others:

NZ_JAQDZW010000013.1 Lanthipeptides: PGT55_RS13345_lanthipeptideNZ_QVMC01000003.1 Lanthipeptides: DWV46_RS15805_lanthipeptide

Lanthipeptides: I2A62_RS14145_lanthipeptide

4

SSFLTIVCC

12

++FLTI CC

31

TAFLTIFCC

39

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Lanthipeptides

Core peptide predictions

ctg133_5 - Class II

Cleavage pHMM score: -4.00

RODEO score: 0

Monoisotopic mass: 1198.6 Da

Molecular weight: 1199.4 Da

Number of bridges: 2

Alternative weights: (assuming N unmodified Ser/Thr residues); 1217.4 Da N = 1; 1235.4 Da N = 2; 1253.4 Da N = 3

gnlProkkaGPMMGMEN_133 - Region 2 - cyclic-lactone-autoinducer

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Location: 17,120 - 28,139 nt. (total: 11,020 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

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core biosynthetic genes

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
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Similar known gene clusters from MIBiG 3.1

No matches found.

gnlProkkaGPMMGMEN_161 - Region 1 - cyclic-lactone-autoinducer

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Location: 1 - 11,161 nt. (total: 11,161 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
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Similar known gene clusters from MIBiG 3.1

No matches found.

gnlProkkaGPMMGMEN_166 - Region 1 - cyclic-lactone-autoinducer

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Location: 1 - 14,331 nt. (total: 14,331 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

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Gene overview

KnownClusterBlast

Gene/CDS overview

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
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Similar known gene clusters from MIBiG 3.1

No matches found.

gnlProkkaGPMMGMEN_167 - Region 1 - RRE-containing

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Location: 2,424 - 13,784 nt. (total: 11,361 nt) Show pHMM detection rules used

Region on contig edge.

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

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resistance

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KnownClusterBlast

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

Similar known gene clusters from MIBiG 3.1

No matches found.

gnlProkkaGPMMGMEN_169 - Region 1 - lanthipeptide-class-ii

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Location: 1 - 14,322 nt. (total: 14,322 nt) Show pHMM detection rules used

Region on contig edge.

lanthipeptide-class-ii: cds(LANC_like and DUF4135)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

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Gene overview

KnownClusterBlast

Lanthipeptides

Gene/CDS overview

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

Similar known gene clusters from MIBiG 3.1

No matches found.

Lanthipeptide predictions

Lanthipeptides - No core peptides found.

Lanthipeptides

Core peptide predictions

No core peptides found.

gnlProkkaGPMMGMEN_175 - Region 1 - cyclic-lactone-autoinducer

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Location: 1 - 11,296 nt. (total: 11,296 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

Legend:

core biosynthetic genes

additional biosynthetic genes

transport-related genes

regulatory genes

other genes

resistance

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Gene details

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Gene overview

KnownClusterBlast

Gene/CDS overview

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

Similar known gene clusters from MIBiG 3.1

No matches found.