GCA_004923335.1 - 17 region(s)

Identified secondary metabolite regions using strictness 'relaxed'

Region	Type	From	To	Most similar known cluster	Similarity
Region 7.1	NRPS	81,942	129,078	bacillibactin	NRP	100%
Region 7.2	thiopeptide,LAP	148,272	178,380
Region 7.3	RRE-containing	452,292	471,809
Region 7.4	sactipeptide	685,743	707,354	subtilosin A	RiPP:Thiopeptide	100%
Region 7.5	other	710,654	752,072	bacilysin	Other	100%
Region 7.6	RiPP-like	955,113	967,844

Region	Type	From	To	Most similar known cluster	Similarity
Region 8.1	NRPS	1	22,701	plipastatin	NRP	38%
Region 8.2	terpene	101,434	123,335
Region 8.3	T3PKS	169,998	211,095
Region 8.4	RiPP-like	578,913	589,269

Region	Type	From	To	Most similar known cluster	Similarity
Region 9.1	betalactone,NRPS	1	27,257	fengycin	NRP	73%
Region 9.2	NRPS,transAT-PKS,T3PKS,PKS-like	100,559	205,739	bacillaene	Polyketide + NRP	100%
Region 9.3	terpene	831,979	852,785

Region	Type	From	To	Most similar known cluster	Similarity
Region 10.1	NRPS	209,452	274,843	surfactin	NRP:Lipopeptide	82%

Region	Type	From	To	Most similar known cluster	Similarity
Region 11.1	NRPS,T1PKS	62,488	143,840	zwittermicin A	NRP + Polyketide	18%

Region	Type	From	To	Most similar known cluster	Similarity
Region 15.1	NRPS	1	14,746	plipastatin	NRP	30%

Region	Type	From	To	Most similar known cluster		Similarity
Region 1.1	NRPS	1	9,423	plipastatin	NRP	15%
Region 7.1	NRPS	81,942	129,078	bacillibactin	NRP	100%
Region 7.2	thiopeptide,LAP	148,272	178,380
Region 7.3	RRE-containing	452,292	471,809
Region 7.4	sactipeptide	685,743	707,354	subtilosin A	RiPP:Thiopeptide	100%
Region 7.5	other	710,654	752,072	bacilysin	Other	100%
Region 7.6	RiPP-like	955,113	967,844
Region 8.1	NRPS	1	22,701	plipastatin	NRP	38%
Region 8.2	terpene	101,434	123,335
Region 8.3	T3PKS	169,998	211,095
Region 8.4	RiPP-like	578,913	589,269
Region 9.1	betalactone,NRPS	1	27,257	fengycin	NRP	73%
Region 9.2	NRPS,transAT-PKS,T3PKS,PKS-like	100,559	205,739	bacillaene	Polyketide + NRP	100%
Region 9.3	terpene	831,979	852,785
Region 10.1	NRPS	209,452	274,843	surfactin	NRP:Lipopeptide	82%
Region 11.1	NRPS,T1PKS	62,488	143,840	zwittermicin A	NRP + Polyketide	18%
Region 15.1	NRPS	1	14,746	plipastatin	NRP	30%

Compact view

PYWO01000010.1 - Region 1 - NRPS

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Location: 1 - 9,423 nt. (total: 9,423 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

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 0 - 9423:

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

Polymer prediction:: (D-val) + (pro)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

PYWO01000001.1 - Region 1 - NRPS

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Location: 81,942 - 129,078 nt. (total: 47,137 nt) Show pHMM detection rules used

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

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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

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NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 81941 - 129078:

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

Polymer prediction:: (gly - thr)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

PYWO01000001.1 - Region 2 - LAP,thiopeptide

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Location: 148,272 - 178,380 nt. (total: 30,109 nt) Show pHMM detection rules used

thiopeptide: ((YcaO or TIGR03882) and ((thio_amide and (PF06968 or PF04055 or PF07366)) or Lant_dehydr_C or Lant_dehydr_N or PF07366 or PF06968 or PF04055) or thiostrepton)
LAP: ((((goadsporin_like or PF00881 or TIGR03605) and (YcaO or TIGR03882 or TIGR03604)) or TIGR03603 or TIGR03602) and not cyanobactin_synth)

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Thiopeptides

KnownClusterBlast

Thiopeptide predictions

No core peptides found.

Thiopeptides

Core peptide predictions

No core peptides found.

PYWO01000001.1 - Region 3 - RRE-containing

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Location: 452,292 - 471,809 nt. (total: 19,518 nt) Show pHMM detection rules used

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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KnownClusterBlast

Similar known gene clusters

No matches found.

PYWO01000001.1 - Region 4 - sactipeptide

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Location: 685,743 - 707,354 nt. (total: 21,612 nt) Show pHMM detection rules used

sactipeptide: (subtilosin or thuricin or TIGR04404 or Subtilosin_A or skfc)

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KnownClusterBlast

Sactipeptides

Sactipeptide predictions

Putative Sactipeptide(s)

ctg7_687 leader / core peptide: MKKAVIVENK - GCATCSIGAACLVDGPIPDFEIAGATGLFGLWG

Sactipeptides

Core peptide predictions

ctg7_687: Putative sactipeptide; RODEO score: 33.0; Core sequence, approximate: GCATCSIGAACLVDGPIPDFEIAGATGLFGLWG

PYWO01000001.1 - Region 5 - other

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Location: 710,654 - 752,072 nt. (total: 41,419 nt) Show pHMM detection rules used

other: (LmbU or Neocarzinostat or fom1 or bcpB or frbD or mitE or vlmB or prnB or CaiA or bacilysin or orf2_PTase)

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KnownClusterBlast

Similar known gene clusters

PYWO01000001.1 - Region 6 - RiPP-like

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Location: 955,113 - 967,844 nt. (total: 12,732 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193)

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KnownClusterBlast

Similar known gene clusters

No matches found.

PYWO01000002.1 - Region 1 - NRPS

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Location: 1 - 22,701 nt. (total: 22,701 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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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

PYWO01000002.1 - Region 2 - terpene

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Location: 101,434 - 123,335 nt. (total: 21,902 nt) Show pHMM detection rules used

terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

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KnownClusterBlast

Similar known gene clusters

No matches found.

PYWO01000002.1 - Region 3 - T3PKS

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Location: 169,998 - 211,095 nt. (total: 41,098 nt) Show pHMM detection rules used

T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)

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KnownClusterBlast

Similar known gene clusters

No matches found.

PYWO01000002.1 - Region 4 - RiPP-like

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Location: 578,913 - 589,269 nt. (total: 10,357 nt) Show pHMM detection rules used

RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193)

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KnownClusterBlast

Similar known gene clusters

No matches found.

PYWO01000003.1 - Region 1 - NRPS,betalactone

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Location: 1 - 27,257 nt. (total: 27,257 nt) Show pHMM detection rules used

Region on contig edge.

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

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core biosynthetic genes

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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 0 - 27257:

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

Polymer prediction:: (D-tyr) + (ile)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

PYWO01000003.1 - Region 2 - NRPS,PKS-like,T3PKS,transAT-PKS

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Location: 100,559 - 205,739 nt. (total: 105,181 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX))
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)))
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)
PKS-like: (t2pks2 or ksIII)

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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 2, location 100558 - 205739:

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

Polymer prediction:: (gly - ccmal - ohmal - mal) + (ccmal - mal - ohmal - mal - mal) + (ccmal - ohmal - mal - mal) + (X - ccmal - ccmal - ccmal) + (mal - mal - ccmal)

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 3, location 115197 - 205739:

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

Polymer prediction:: (gly - ccmal - ohmal - mal) + (ccmal - mal - ohmal - mal - mal) + (ccmal - ohmal - mal - mal) + (X - ccmal - ccmal - ccmal) + (mal - mal - ccmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

PYWO01000003.1 - Region 3 - terpene

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Location: 831,979 - 852,785 nt. (total: 20,807 nt) Show pHMM detection rules used

terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)

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KnownClusterBlast

Similar known gene clusters

No matches found.

PYWO01000004.1 - Region 1 - NRPS

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Location: 209,452 - 274,843 nt. (total: 65,392 nt) Show pHMM detection rules used

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

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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 209451 - 274843:

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

Polymer prediction:: (glu - leu - D-leu) + (val - asp - D-leu) + (leu)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg10_240

Search NORINE for peptide: strict or relaxed

AMP-binding (469..867): leu

NRPSPredictor2: leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: gly, ala, val, leu, ile, abu, iva
Small clusters prediction:: val, leu, ile, abu, iva
Single AA prediction:: leu

Stachelhaus prediction details:

Stachelhaus sequence:: DAFFLGCVFK
Nearest Stachelhaus code:: leu
Stachelhaus code match:: 100% (strong)

ctg10_241

Search NORINE for peptide: strict or relaxed

AMP-binding (470..864): val

NRPSPredictor2: val

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: gly, ala, val, leu, ile, abu, iva
Small clusters prediction:: val, leu, ile, abu, iva
Single AA prediction:: val

Stachelhaus prediction details:

Stachelhaus sequence:: DAFWIGGTFK
Nearest Stachelhaus code:: val
Stachelhaus code match:: 100% (strong)

AMP-binding (1501..1904): asp

NRPSPredictor2: asp

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: asp, asn
Single AA prediction:: asp

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKVGHIGK
Nearest Stachelhaus code:: asp
Stachelhaus code match:: 100% (strong)

AMP-binding (2546..2934): leu

NRPSPredictor2: leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: gly, ala, val, leu, ile, abu, iva
Small clusters prediction:: val, leu, ile, abu, iva
Single AA prediction:: leu

Stachelhaus prediction details:

Stachelhaus sequence:: DAWFLGNVVK
Nearest Stachelhaus code:: leu
Stachelhaus code match:: 100% (strong)

ctg10_242

Search NORINE for peptide: strict or relaxed

AMP-binding (466..867): glu

NRPSPredictor2: glu

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: glu, gln
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DAKDLGVVDK
Nearest Stachelhaus code:: glu
Stachelhaus code match:: 100% (strong)

AMP-binding (1510..1908): leu

NRPSPredictor2: leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: gly, ala, val, leu, ile, abu, iva
Small clusters prediction:: val, leu, ile, abu, iva
Single AA prediction:: leu

Stachelhaus prediction details:

Stachelhaus sequence:: DAFMMGMVFK
Nearest Stachelhaus code:: leu
Stachelhaus code match:: 100% (strong)

AMP-binding (2550..2938): leu

NRPSPredictor2: leu

SVM prediction details:

Predicted physicochemical class:: hydrophobic-aliphatic
Large clusters prediction:: gly, ala, val, leu, ile, abu, iva
Small clusters prediction:: val, leu, ile, abu, iva
Single AA prediction:: leu

Stachelhaus prediction details:

Stachelhaus sequence:: DAWFLGNVVK
Nearest Stachelhaus code:: leu
Stachelhaus code match:: 100% (strong)

PYWO01000005.1 - Region 1 - NRPS,T1PKS

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Location: 62,488 - 143,840 nt. (total: 81,353 nt) Show pHMM detection rules used

NRPS: cds(Condensation and (AMP-binding or A-OX))
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))

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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 62487 - 143840:

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

Polymer prediction:: (D-asn) + (asn - ohmal) + (glu) + (ohmal) + (mal - ohmal) + (mal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS monomer predictions

ctg11_76

Search NORINE for peptide: strict or relaxed

AMP-binding (463..859): asn

NRPSPredictor2: asn

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: asp, asn
Single AA prediction:: asn

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKIGEVGK
Nearest Stachelhaus code:: asn
Stachelhaus code match:: 100% (strong)

ctg11_84

Search NORINE for peptide: strict or relaxed

AMP-binding (480..874): asn

NRPSPredictor2: asn

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: asp, asn
Single AA prediction:: asn

Stachelhaus prediction details:

Stachelhaus sequence:: DLTKIGEVGK
Nearest Stachelhaus code:: asn
Stachelhaus code match:: 100% (strong)

PKS_AT (1595..1890): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 75.0%; inactive: 70.8%; 2-Rhyd-Malonyl-CoA: 66.7%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 89.1
inactive: 63.4
Methoxymalonyl-CoA: 44.6
Methylmalonyl-CoA: 31.8
Propionyl-CoA: 27.2
Isobutyryl-CoA: 9.6
trans-1,2-CPDA: 0.0
fatty_acid: 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

ctg11_85

Search NORINE for peptide: strict or relaxed

AMP-binding (273..674): glu

NRPSPredictor2: glu

SVM prediction details:

Predicted physicochemical class:: hydrophilic
Large clusters prediction:: asp, asn, glu, gln, aad
Small clusters prediction:: N/A
Single AA prediction:: glu

Stachelhaus prediction details:

Stachelhaus sequence:: DAQDmGnVqK
Nearest Stachelhaus code:: gln
Stachelhaus code match:: 70% (weak)

ctg11_86

PKS_AT (521..804): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 83.3%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 132.6
inactive: 95.3
Methoxymalonyl-CoA: 49.2
Methylmalonyl-CoA: 33.0
Propionyl-CoA: 28.7
Isobutyryl-CoA: 11.3
Benzoyl-CoA: 9.1
Acetyl-CoA: 8.5
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

ctg11_87

PKS_AT (531..797): mal

ATSignature: (unknown)

No matches above 50%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 26.2
Methoxymalonyl-CoA: 19.8
trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
Propionyl-CoA: 0.0
Methylmalonyl-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

PKS_AT (1508..1796): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 83.3%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 173.5
inactive: 102.3
Methoxymalonyl-CoA: 69.9
Methylmalonyl-CoA: 53.7
Propionyl-CoA: 36.3
Ethylmalonyl-CoA: 24.0
fatty_acid: 18.2
Benzoyl-CoA: 16.2
Acetyl-CoA: 13.6
Isobutyryl-CoA: 12.0
trans-1,2-CPDA: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
2-Methylbutyryl-CoA: 0.0

ctg11_88

PKS_AT (534..827): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 91.7%; 2-Rhyd-Malonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 148.0
inactive: 117.4
Methoxymalonyl-CoA: 72.4
Methylmalonyl-CoA: 60.9
Propionyl-CoA: 40.8
Isobutyryl-CoA: 33.8
Ethylmalonyl-CoA: 20.6
2-Methylbutyryl-CoA: 16.4
fatty_acid: 15.4
CHC-CoA: 14.6
Benzoyl-CoA: 11.9
trans-1,2-CPDA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0

PYWO01000009.1 - Region 1 - NRPS

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Location: 1 - 14,746 nt. (total: 14,746 nt) Show pHMM detection rules used

Region on contig edge.

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

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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NRPS/PKS domains

KnownClusterBlast

Detailed domain annotation

Selected features only

Show module domains

NRPS/PKS products

NRPS/PKS monomers

Predicted core structure(s)

For candidate cluster 1, location 0 - 14746:

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

Polymer prediction:: (D-orn) + (tyr - D-thr)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form