GCA_020563945.1 - 11 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

gnlProkkaCGDIBNIP_1 (original name was: gnl|Prokka|CGDIBNIP_1)

Region	Type	From	To	Most similar known cluster		Similarity
Region 1.1	cyclic-lactone-autoinducer	121,333	142,082

gnlProkkaCGDIBNIP_12 (original name was: gnl|Prokka|CGDIBNIP_12)

Region	Type	From	To	Most similar known cluster		Similarity
Region 3.1	ranthipeptide	14,848	36,436

gnlProkkaCGDIBNIP_101 (original name was: gnl|Prokka|CGDIBNIP_101)

Region	Type	From	To	Most similar known cluster		Similarity
Region 17.1	NRPS	25,334	60,356	dipeptide aldehydes	NRP	47%

gnlProkkaCGDIBNIP_107 (original name was: gnl|Prokka|CGDIBNIP_107)

Region	Type	From	To	Most similar known cluster		Similarity
Region 23.1	NRPS	166,632	214,543

gnlProkkaCGDIBNIP_112 (original name was: gnl|Prokka|CGDIBNIP_112)

Region	Type	From	To	Most similar known cluster		Similarity
Region 28.1	lanthipeptide-class-ii	7,790	30,780

gnlProkkaCGDIBNIP_118 (original name was: gnl|Prokka|CGDIBNIP_118)

Region	Type	From	To	Most similar known cluster		Similarity
Region 34.1	lanthipeptide-class-ii	147,687	170,347

gnlProkkaCGDIBNIP_122 (original name was: gnl|Prokka|CGDIBNIP_122)

Region	Type	From	To	Most similar known cluster		Similarity
Region 38.1	cyclic-lactone-autoinducer	1	17,425

gnlProkkaCGDIBNIP_126 (original name was: gnl|Prokka|CGDIBNIP_126)

Region	Type	From	To	Most similar known cluster		Similarity
Region 42.1	RRE-containing	1	15,229

gnlProkkaCGDIBNIP_130 (original name was: gnl|Prokka|CGDIBNIP_130)

Region	Type	From	To	Most similar known cluster		Similarity
Region 46.1	NRPS	1	18,897	equibactin	NRP	14%

gnlProkkaCGDIBNIP_162 (original name was: gnl|Prokka|CGDIBNIP_162)

Region	Type	From	To	Most similar known cluster		Similarity
Region 78.1	cyclic-lactone-autoinducer	1	12,871

gnlProkkaCGDIBNIP_173 (original name was: gnl|Prokka|CGDIBNIP_173)

Region	Type	From	To	Most similar known cluster		Similarity
Region 89.1	cyclic-lactone-autoinducer	107,620	124,295

Region	Type	From	To	Most similar known cluster	Similarity
Region 1.1	cyclic-lactone-autoinducer	121,333	142,082
Region 3.1	ranthipeptide	14,848	36,436
Region 17.1	NRPS	25,334	60,356	dipeptide aldehydes	NRP	47%
Region 23.1	NRPS	166,632	214,543
Region 28.1	lanthipeptide-class-ii	7,790	30,780
Region 34.1	lanthipeptide-class-ii	147,687	170,347
Region 38.1	cyclic-lactone-autoinducer	1	17,425
Region 42.1	RRE-containing	1	15,229
Region 46.1	NRPS	1	18,897	equibactin	NRP	14%
Region 78.1	cyclic-lactone-autoinducer	1	12,871
Region 89.1	cyclic-lactone-autoinducer	107,620	124,295

Compact view

gnlProkkaCGDIBNIP_1 - Region 1 - cyclic-lactone-autoinducer

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Location: 121,333 - 142,082 nt. (total: 20,750 nt) Show pHMM detection rules used

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

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Identifier	Product	Length		Function	Sequence		NCBI Blast	Filter details
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gnlProkkaCGDIBNIP_12 - Region 1 - ranthipeptide

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Location: 14,848 - 36,436 nt. (total: 21,589 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))))

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gnlProkkaCGDIBNIP_101 - Region 1 - NRPS

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Location: 25,334 - 60,356 nt. (total: 35,023 nt) Show pHMM detection rules used

Region on contig edge.

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

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NRPS/PKS domains

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NRPS/PKS modules

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

Detailed domain annotation

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NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 25333 - 60356:

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

ctg17_47

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)

gnlProkkaCGDIBNIP_107 - Region 1 - NRPS

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Location: 166,632 - 214,543 nt. (total: 47,912 nt) Show pHMM detection rules used

Region on contig edge.

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

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NRPS/PKS domains

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NRPS/PKS modules

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		NT	AA		NT	AA

Detailed domain annotation

Selected features only

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No matches found.

Module view

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NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 166631 - 214543:

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

Polymer prediction:: (Cys - Cys) + (Cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

ctg23_181

Search NORINE for peptide: strict or relaxed

AMP-binding (531..918): Cys

nrpys: Cys

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:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: DLFNMSLIWK
Nearest Stachelhaus code(s):: Cys DLFNMSLIWK (82% 8Å match)
Stachelhaus code match:: 100% (strong)

ctg23_182

Search NORINE for peptide: strict or relaxed

AMP-binding (544..940): Cys

nrpys: Cys

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:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: DLYNFSMIWK
Nearest Stachelhaus code(s):: Cys DLYNFSMIWK (85% 8Å match)
Stachelhaus code match:: 100% (strong)

AMP-binding (1978..2370): Cys

nrpys: Cys

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:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: DLYNLSLIWK
Nearest Stachelhaus code(s):: Cys DLYNLSLIWK (94% 8Å match)
Stachelhaus code match:: 100% (strong)

ctg23_183

AMP-binding (9..404): X

nrpys: diOH-Bz, Sal

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aromatic (Phe, Tyr, diOH-Bz, Ph-Gly, bOH-Tyr)
Large clusters prediction:: N/A
Small clusters prediction:: Hydroxy-benzoic acid derivates (diOH-Bz, Sal)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: AFPSQGLVCK
Nearest Stachelhaus code(s):: n-oh-nitropheBut TLPSQGVVCK (65% 8Å match)
Stachelhaus code match:: 70% (weak)

gnlProkkaCGDIBNIP_112 - Region 1 - lanthipeptide-class-ii

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Location: 7,790 - 30,780 nt. (total: 22,991 nt) Show pHMM detection rules used

Region on contig edge.

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

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Lanthipeptide predictions

Lanthipeptide(s) for ctg28_23

ctg28_22

Leader:

MFAEFEKEEMLNDEDLYINAM

Core:

NNDSASSYASNVSDSCCC

Core with dehydrations:

NNDDhaADhaDhaYADhaNVDhaDDhaCysCysCys

antiSMASH-DB 4.0 matches for ctg28_22

28.0% NZ_AP023438.1and 1 other:

NZ_AP023438.1 Lanthipeptides: IGA62_RS12300_lanthipeptide

Lanthipeptides: IGA62_RS12300_lanthipeptide

5

ASSYASNVSDSC

16

AS YA+N D C

1

ASGYATNTDDGC

12

allorf_08197_08370

Leader:

MFCSCIHGCSKFNRKLFDERENNRFNAADILYA

Core:

IQAICVAFLKTALIYYLIAIFFRR

Core with dehydrations:

IQAICysVAFLKDhbALIYYLIAIFFRR

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Lanthipeptides

Core peptide predictions

ctg28_22 - Class II

Cleavage pHMM score: -4.00

RODEO score: 0

Monoisotopic mass: 1717.6 Da

Molecular weight: 1718.7 Da

Number of bridges: 3

Alternative weights: (assuming N unmodified Ser/Thr residues); 1736.8 Da N = 1; 1754.8 Da N = 2; 1772.8 Da N = 3

allorf_08197_08370 - Class II

Cleavage pHMM score: -0.60

RODEO score: 0

Monoisotopic mass: 2827.6 Da

Molecular weight: 2829.5 Da

Number of bridges: 1

gnlProkkaCGDIBNIP_118 - Region 1 - lanthipeptide-class-ii

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Location: 147,687 - 170,347 nt. (total: 22,661 nt) Show pHMM detection rules used

Region on contig edge.

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

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Lanthipeptide predictions

Lanthipeptide(s) for ctg34_131

ctg34_121

Leader:

MGDKRLYKSSENSMLCGVCGG

Core:

IAEYFGIDPTLVRLAWVILTCFGGAGIWAYIIAAIIIPKR

Core with dehydrations:

IAEYFGIDPDhbLVRLAWVILDhbCysFGGAGIWAYIIAAIIIPKR

MIBiG 3.1 matches for ctg34_121

12.5% BGC0000517 (BAB04173.1): Lanthipeptide: haloduracin β or haloduracin α

14

LAWVILTC-FGGAGIWAYIIAAII

36

AW ++C G G + + +

1

CAWYNISCRLGNKGAYCTLTVECM

24

antiSMASH-DB 4.0 matches for ctg34_121

97.5% NZ_CZBP01000025.1: Lanthipeptides: ARA22_RS13900_lanthipeptide

1

IAEYFGIDPTLVRLAWVILTCFGGAGIWAYIIAAIIIPKR

40

IAEYF IDPTLVRLAWVILTCFGGAGIWAYIIAAIIIPKR

1

IAEYFDIDPTLVRLAWVILTCFGGAGIWAYIIAAIIIPKR

40

14.3% NZ_MOWR01000001.1: Lanthipeptides: BMI76_RS01735_lanthipeptide

16

WVILTCFGGAGIWA

29

+V L C GAG++A

28

YVTLACAAGAGVYA

41

ctg34_130

Leader:

MKNNEKNFIGDINKELEEIEKLDILEEIEESLLTMLGS

Core:

VNSLFCCH

Core with dehydrations:

VNDhaLFCysCysH

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Lanthipeptides

Core peptide predictions

ctg34_121 - Class II

Cleavage pHMM score: -7.30

RODEO score: 0

Monoisotopic mass: 4367.5 Da

Molecular weight: 4370.2 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 4388.3 Da N = 1

ctg34_130 - Class II

Cleavage pHMM score: -3.20

RODEO score: 0

Monoisotopic mass: 903.4 Da

Molecular weight: 904.1 Da

Number of bridges: 1

gnlProkkaCGDIBNIP_122 - Region 1 - cyclic-lactone-autoinducer

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Location: 1 - 17,425 nt. (total: 17,425 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

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gnlProkkaCGDIBNIP_126 - Region 1 - RRE-containing

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Location: 1 - 15,229 nt. (total: 15,229 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])

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gnlProkkaCGDIBNIP_130 - Region 1 - NRPS

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Location: 1 - 18,897 nt. (total: 18,897 nt) Show pHMM detection rules used

Region on contig edge.

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

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NRPS/PKS domains

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

Detailed domain annotation

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NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 0 - 18897:

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

Polymer prediction:: (Cys) + (Me-Cys)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

ctg46_9

Search NORINE for peptide: strict or relaxed

AMP-binding (526..926): Cys

nrpys: Cys

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:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: DLANISQIWK
Nearest Stachelhaus code(s):: Cys DLYNLSLIWK (74% 8Å match)
Stachelhaus code match:: 70% (weak)

ctg46_10

Search NORINE for peptide: strict or relaxed

AMP-binding (557..957): Cys

nrpys: Cys

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:: Polar, uncharged (aliphatic with -SH) (Cys)
Small clusters prediction:: Polar, uncharged (aliphatic with -SH) (Cys)
Single AA prediction:: Polar, uncharged (aliphatic with -SH) (Cys)

Stachelhaus prediction details:

Stachelhaus sequence:: DLFNMSMIWK
Nearest Stachelhaus code(s):: Cys DLYNMSMIWK (76% 8Å match)
Stachelhaus code match:: 90% (moderate)

gnlProkkaCGDIBNIP_162 - Region 1 - cyclic-lactone-autoinducer

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Location: 1 - 12,871 nt. (total: 12,871 nt) Show pHMM detection rules used

Region on contig edge.

cyclic-lactone-autoinducer: (TIGR04223 or AgrB)

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gnlProkkaCGDIBNIP_173 - Region 1 - cyclic-lactone-autoinducer

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Location: 107,620 - 124,295 nt. (total: 16,676 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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