GCA_010669205.1 - 3 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

gnlProkkaNJJLAAGJ_1 (original name was: gnl|Prokka|NJJLAAGJ_1)

Region	Type	From	To	Most similar known cluster		Similarity
Region 1	NRPS	316,951	364,378	nisin O	RiPP:Lanthipeptide	13%
Region 2	transAT-PKS,lanthipeptide-class-ii	919,073	990,988	isobongkrekic acid/bongkrekic acid	Polyketide:Modular type I polyketide	14%
Region 3	ranthipeptide	1,323,666	1,345,374

gnlProkkaNJJLAAGJ_1 - Region 1 - NRPS

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Location: 316,951 - 364,378 nt. (total: 47,428 nt) Show pHMM detection rules used

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

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Similar known gene clusters from MIBiG 3.1

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NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 316950 - 364378:

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

Polymer prediction:: (X - X)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

ctg1_324

AMP-binding (483..867): X

nrpys: (unknown)

SVM prediction details:

Predicted physicochemical class:: N/A
Large clusters prediction:: N/A
Small clusters prediction:: N/A
Single AA prediction:: leu (Leu)

Stachelhaus prediction details:

Stachelhaus sequence:: DALAVGQVAK
Nearest Stachelhaus code(s):: Trp DALAVGQVVK (50% 8Å match)
Stachelhaus code match:: 90% (moderate)

AMP-binding (1500..1888): X

nrpys: Gly, Ala

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:: Tiny, hydrophilic, transition to aliphatic (Gly, Ala)
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DVIQIMIVYK
Nearest Stachelhaus code(s):: Ala DILQITLVYK (53% 8Å match)
Stachelhaus code match:: 60% (weak)

ctg1_327

AMP-binding (22..445): X

nrpys: Orn, Lys, Arg

SVM prediction details:

Predicted physicochemical class:: hydrophilic (Arg, Asp, Glu, Asn, Lys, Gln, Orn, Aad)
Large clusters prediction:: Long positively charged side chain (Orn, Lys, Arg)
Small clusters prediction:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: -MECIGGPLK
Nearest Stachelhaus code(s):
Stachelhaus code match:: 0% (weak)

gnlProkkaNJJLAAGJ_1 - Region 2 - lanthipeptide-class-ii,transAT-PKS

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Location: 919,073 - 990,988 nt. (total: 71,916 nt) Show pHMM detection rules used

transAT-PKS: (cds(PKS_AT and not (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) and (cds(ATd and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) or cds(tra_KS and PP-binding)))
lanthipeptide-class-ii: cds(LANC_like and DUF4135)

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core biosynthetic genes

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Gene details

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Gene overview

NRPS/PKS domains

KnownClusterBlast

Lanthipeptides

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

Lanthipeptide predictions

Lanthipeptide(s) for ctg1_918

allorf_0970615_0970728

Leader:

MTVSFTTKSKESYTFRNETRNFM

Core:

DISAISYLCNVNAK

Core with dehydrations:

DIDhaAIDhaYLCysNVNAK

MIBiG 3.1 matches for allorf_0970615_0970728

15.8% BGC0000503 (cinA): Lanthipeptide: cinnamycin

ISAISYLCNVNAK

+++C+ N K

FGPFTFVCDGNTK

antiSMASH-DB 4.0 matches for allorf_0970615_0970728

100.0% NZ_CP048626.1: Lanthipeptides: allorf_0970615_0970728_lanthipeptide

DISAISYLCNVNAK

35.3% NZ_BMMJ01000006.1: Lanthipeptides: allorf_158486_158584_lanthipeptide

SAISYLCNVN

S +S LCN N

STVSVLCNCN

16.1% NZ_CP045143.1: Lanthipeptides: D1010_RS18265_lanthipeptide

SAISYLCNVN

S IS++C+V

SGISFICSVK

allorf_0970852_0971037

Leader:

MLSAVASCFQKSFPNFSESPVITRFRNVVQLA

Core:

PFIDFHTLWTILAIFDQFGPFTQTSLLCN

Core with dehydrations:

PFIDFHDhbLWDhbILAIFDQFGPFDhbQDhbDhaLLCysN

MIBiG 3.1 matches for allorf_0970852_0971037

17.2% BGC0000503 (cinA): Lanthipeptide: cinnamycin

FGPFT

antiSMASH-DB 4.0 matches for allorf_0970852_0971037

24.1% NZ_CP046122.1: Lanthipeptides: allorf_1394204_1394308_lanthipeptide

AIFDQFGPFTQTSLLCN

++ DQ GP+++T+ CN

SVTDQPGPWSRTARACN

17.5% NZ_BKZV01000001.1: Lanthipeptides: allorf_0679432_0679605_lanthipeptide

IDFHTLWTILAIFDQFGPFTQT

I +H +LA+ F P T

IRYHYALYLLAVASLFAPLTSV

16.7% NZ_CP034351.1and 1 other:

NZ_CP034351.1 Lanthipeptides: D1J60_RS35670_lanthipeptide

Lanthipeptides: D1J60_RS35670_lanthipeptide

TILAIFDQFGP

TI++ D+ GP

TIISCVDELGP

with 1 more sequence matches

13.7% NZ_CP027306.1: Lanthipeptides: allorf_8952890_8953126_lanthipeptide

FHTLWTILAIFDQFGPFTQTSL

LW ++FD+ G F S+

LSALWQRESLFDERGLFRARSM

allorf_0987907_0987981

Leader:

MPNADNILFR

Core:

GWSNSECGDNPVKK

Core with dehydrations:

GWDhaNDhaECysGDNPVKK

antiSMASH-DB 4.0 matches for allorf_0987907_0987981

100.0% NZ_CP048626.1: Lanthipeptides: allorf_0987907_0987981_lanthipeptide

GWSNSECGDNPVKK

Legend:

Dha: Didehydroalanine
Dhb: Didehydrobutyrine

Module view

Legend

Lanthipeptides

NRPS/PKS products

NRPS/PKS substrates

Core peptide predictions

allorf_0970615_0970728 - Class II

Cleavage pHMM score: -6.90

RODEO score: 0

Monoisotopic mass: 1473.7 Da

Molecular weight: 1474.7 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 1492.7 Da N = 1

allorf_0970852_0971037 - Class II

Cleavage pHMM score: -6.80

RODEO score: 0

Monoisotopic mass: 3294.7 Da

Molecular weight: 3296.8 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 3314.8 Da N = 1; 3332.8 Da N = 2; 3350.8 Da N = 3; 3368.8 Da N = 4

allorf_0987907_0987981 - Class II

Cleavage pHMM score: -7.00

RODEO score: 0

Monoisotopic mass: 1483.7 Da

Molecular weight: 1484.6 Da

Number of bridges: 1

Alternative weights: (assuming N unmodified Ser/Thr residues); 1502.6 Da N = 1

Predicted core structure(s)

For candidate cluster 2, location 919072 - 990988:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (ccmal - ccmal) + (ohmal) + (mal) + (ccmal)
Non-colinear ordering:: ctg1_903 + ctg1_901 + ctg1_900 + ctg1_899

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 919072 - 990531:

Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account

Polymer prediction:: (ccmal - ccmal) + (ohmal) + (mal) + (ccmal)
Non-colinear ordering:: ctg1_903 + ctg1_901 + ctg1_900 + ctg1_899

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

ctg1_908

PKS_AT (8..285): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 66.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 85.6
inactive: 41.4
Methoxymalonyl-CoA: 14.4
Methylmalonyl-CoA: 10.0
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Propionyl-CoA: 0.0
Isobutyryl-CoA: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

gnlProkkaNJJLAAGJ_1 - Region 3 - ranthipeptide

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Location: 1,323,666 - 1,345,374 nt. (total: 21,709 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

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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.