BGC0001875 - 1 region(s) - antiSMASH results

Identified secondary metabolite regions using strictness 'relaxed'

BGC0001875 (Nocardia arthritidis)

Region	Type	From	To	Similarity Confidence	Most similar known cluster
Region 1	T1PKS,PKS-like	1	64,885	High	nargenicin A1	PKS:Type I

BGC0001875 - Region 1 - PKS-like,T1PKS

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Location: 1 - 64,885 nt. (total: 64,885 nt) Show pHMM detection rules used

Region on contig edge.

T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
PKS-like: (t2pks2 or ksIII)

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core biosynthetic genes

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transport-related genes

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TTA codons

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Gene details

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Gene overview

MIBiG

Tailoring

MIBiG comparison

KnownClusterBlast

NRPS/PKS modules

NRPS/PKS domains

Gene/CDS overview

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

External annotation

Name		MIBiG
Version		4.0alpha

Type		Subregion
Location		1 - 64,886
Label		BGC0001875

Tailoring functions

Oxidoreductases: Cyclization dehydrogenase oxidoreductase oxygenase

narD: Cyclization

MITE: MITE0000113Cyclization (identity: 94.10%)

narF: aldo/keto reductase family oxidoreductase

smcogs: SMCOG1039: aldo/keto reductase family oxidoreductase

narG: Hydroxylation

MITE: MITE0000112Hydroxylation (identity: 90.90%)
smcogs: SMCOG1007: cytochrome P450

narH: Hydroxylation

MITE: MITE0000154Hydroxylation (identity: 81.20%)
smcogs: SMCOG1083: oxidoreductase

narI: oxidoreductase

smcogs: SMCOG1083: oxidoreductase

narJ: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

narM: Hydroxylation

MITE: MITE0000115Hydroxylation (identity: 87.90%)
smcogs: SMCOG1007: cytochrome P450

narO: short-chain dehydrogenase/reductase SDR

smcogs: SMCOG1001: short-chain dehydrogenase/reductase SDR

ngnN3: acyl-CoA dehydrogenase

smcogs: SMCOG1006: acyl-CoA dehydrogenase

Transferases: methyltransferase

narK: Methylation

MITE: MITE0000114Methylation (identity: 87.40%)
smcogs: SMCOG1089: methyltransferase

Hydrolases: esterase

narE: thioesterase

smcogs: SMCOG1004: thioesterase

Ligases: ligase synthase

narA: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

narB: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

narC: Beta-ketoacyl synthase

smcogs: SMCOG1022: Beta-ketoacyl synthase

ngnN2: 3-oxoacyl-(acyl carrier protein) synthase III

smcogs: SMCOG1084: 3-oxoacyl-(acyl carrier protein) synthase III

ngnN4: AMP-dependent synthetase and ligase

smcogs: SMCOG1002: AMP-dependent synthetase and ligase

Similar gene clusters

Analysis type:

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001875.4	1.36	PKS	nargenicin A1	Nocardia arthritidis AUSMDU00012717 Unclassified.
BGC0002024.3	0.80	PKS	nargenicin A1, nargenicin A1	Nocardia argentinensis
BGC0001268.4	0.51	NRPS, PKS	fusarin C	Fusarium fujikuroi
BGC0001641.4	0.51	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001833.4	0.51	NRPS	icosalide A, icosalide B	Burkholderia gladioli
BGC0002286.3	0.51	NRPS	ririwpeptide A, ririwpeptide B, ririwpeptide C	Photorhabdus laumondii subsp. laumondii TTO1
BGC0001164.3	0.50	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0002276.2	0.50	NRPS	choline	Aspergillus nidulans FGSC A4
BGC0000357.5	0.50	NRPS	cyclo-(D-Phe-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Trp-D-Val-L-Val), cyclo-(D-Phe-L-Phe-D-Val-L-Ile), cyclo-(D-Phe-L-Phe-D-Ile-L-Val), cyclo-(D-Tyr-L-Trp-D-Val-L-Ile), cyclo-(D-Tyr-L-Trp-D-Ile-L-Val), cyclo-(D-Tyr-L-Phe-D-Val-L-Ile), cyclo-(D-Tyr-L-Phe-D-Ile-L-Val)	Penicillium rubens Wisconsin 54-1255
BGC0001261.3	0.50	NRPS	AM-toxin	Alternaria alternata

Reference	Similarity score	Type	Compound(s)	Organism
BGC0001875.4	1.00	PKS	nargenicin A1	Nocardia arthritidis AUSMDU00012717 Unclassified.
BGC0002024.3	0.81	PKS	nargenicin A1, nargenicin A1	Nocardia argentinensis
BGC0001275.3	0.75	PKS	6-methylsalicyclic acid	Glarea lozoyensis
BGC0001244.3	0.75	PKS	(-)-Mellein	Parastagonospora nodorum
BGC0001273.3	0.75	PKS	asperlactone	Aspergillus ochraceus
BGC0000041.3	0.66	PKS	oronofacic acid	Pseudomonas syringae
BGC0001160.5	0.63	PKS	1-nonadecene, (14Z)-1,14-nonadecadiene	Synechococcus sp. PCC 7002
BGC0001164.3	0.63	PKS	1-heptadecene	Cyanothece sp. PCC 7822
BGC0001641.4	0.62	NRPS	kolossin	Photorhabdus laumondii subsp. laumondii TTO1
BGC0000067.5	0.62	PKS	geldanamycin	Streptomyces hygroscopicus subsp. duamyceticus

Similar known clusters from MIBiG 4.0

Module view

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Detailed domain annotation

Selected features only

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NRPS/PKS products

NRPS/PKS substrates

Predicted core structure(s)

For candidate cluster 1, location 0 - 64885:

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

Polymer prediction:: (Me-mal - Me-ohmal - Me-ccmal - ccmal) + (Me-ohmal - ohmal - ccmal) + (ccmal - ccmal)
Non-colinear ordering:: narA + narB + narC

Direct lookup in NORINE database: strict or relaxed

For candidate cluster 2, location 43564 - 64885:

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

Polymer prediction:: (Me-mal - Me-ohmal - Me-ccmal - ccmal)

Direct lookup in NORINE database: strict or relaxed

Link to NORINE database query form

NRPS/PKS substrate predictions

narC: mal - mal

PKS_AT (557..831): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Methylmalonyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 194.4
inactive: 93.4
Methoxymalonyl-CoA: 71.4
Methylmalonyl-CoA: 70.1
Isobutyryl-CoA: 49.2
Ethylmalonyl-CoA: 40.8
Propionyl-CoA: 36.6
Acetyl-CoA: 29.2
CHC-CoA: 21.8
trans-1,2-CPDA: 19.3
2-Methylbutyryl-CoA: 18.1
Benzoyl-CoA: 13.0
fatty_acid: 11.8
3-Methylbutyryl-CoA: 0.0

PKS_AT (2198..2469): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 87.5%; inactive: 75.0%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 171.0
inactive: 84.4
Methoxymalonyl-CoA: 75.0
Methylmalonyl-CoA: 60.2
Propionyl-CoA: 50.0
Ethylmalonyl-CoA: 41.6
Isobutyryl-CoA: 39.3
Acetyl-CoA: 26.9
trans-1,2-CPDA: 20.0
Benzoyl-CoA: 17.9
2-Methylbutyryl-CoA: 15.7
fatty_acid: 12.5
CHC-CoA: 11.7
3-Methylbutyryl-CoA: 0.0

narB: mmal - mal - mal

PKS_AT (558..847): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Malonyl-CoA: 91.7%; Methoxymalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 210.1
Ethylmalonyl-CoA: 198.5
Methoxymalonyl-CoA: 172.0
2-Methylbutyryl-CoA: 148.2
trans-1,2-CPDA: 122.9
Malonyl-CoA: 111.8
Propionyl-CoA: 109.3
CHC-CoA: 98.7
Isobutyryl-CoA: 81.7
Benzoyl-CoA: 77.7
Acetyl-CoA: 38.5
fatty_acid: 37.8
inactive: 30.1
3-Methylbutyryl-CoA: 14.5

PKS_AT (2059..2329): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 95.8%; inactive: 79.2%; Propionyl-CoA: 54.2%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 196.5
inactive: 103.5
Methoxymalonyl-CoA: 82.0
Methylmalonyl-CoA: 76.4
Isobutyryl-CoA: 48.9
Propionyl-CoA: 40.2
Ethylmalonyl-CoA: 39.6
Acetyl-CoA: 36.9
2-Methylbutyryl-CoA: 27.2
Benzoyl-CoA: 25.3
CHC-CoA: 20.4
trans-1,2-CPDA: 20.0
fatty_acid: 13.6
3-Methylbutyryl-CoA: 10.1

PKS_AT (3547..3818): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 70.8%; Methylmalonyl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 188.5
inactive: 118.9
Methoxymalonyl-CoA: 82.8
Methylmalonyl-CoA: 79.5
Isobutyryl-CoA: 53.1
Ethylmalonyl-CoA: 42.4
Propionyl-CoA: 38.7
Acetyl-CoA: 24.8
2-Methylbutyryl-CoA: 23.5
CHC-CoA: 23.2
Benzoyl-CoA: 18.9
trans-1,2-CPDA: 15.8
fatty_acid: 15.7
3-Methylbutyryl-CoA: 6.7

narA: mmal - mmal - mmal - mal

PKS_AT (534..830): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Malonyl-CoA: 91.7%; Methoxymalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 203.4
Ethylmalonyl-CoA: 197.8
Methoxymalonyl-CoA: 162.3
2-Methylbutyryl-CoA: 137.3
trans-1,2-CPDA: 117.0
Propionyl-CoA: 112.5
Malonyl-CoA: 108.2
CHC-CoA: 98.0
Isobutyryl-CoA: 97.2
Benzoyl-CoA: 68.1
Acetyl-CoA: 44.6
inactive: 29.9
fatty_acid: 25.9
3-Methylbutyryl-CoA: 14.1

PKS_AT (1527..1821): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Malonyl-CoA: 91.7%; Methoxymalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 206.6
Ethylmalonyl-CoA: 197.3
Methoxymalonyl-CoA: 169.5
2-Methylbutyryl-CoA: 147.1
Propionyl-CoA: 113.6
trans-1,2-CPDA: 112.8
Malonyl-CoA: 110.2
CHC-CoA: 101.6
Isobutyryl-CoA: 84.7
Benzoyl-CoA: 78.9
Acetyl-CoA: 46.9
fatty_acid: 36.1
inactive: 28.9
3-Methylbutyryl-CoA: 14.6

PKS_AT (3036..3327): mmal

ATSignature: Methylmalonyl-CoA

Top 3 matches:: Methylmalonyl-CoA: 100.0%; Malonyl-CoA: 91.7%; Methoxymalonyl-CoA: 91.7%

minowa: Methylmalonyl-CoA

Prediction, score:

Methylmalonyl-CoA: 213.8
Ethylmalonyl-CoA: 200.9
Methoxymalonyl-CoA: 168.0
2-Methylbutyryl-CoA: 145.2
trans-1,2-CPDA: 122.8
Malonyl-CoA: 113.5
Propionyl-CoA: 107.2
CHC-CoA: 103.1
Isobutyryl-CoA: 86.3
Benzoyl-CoA: 79.9
Acetyl-CoA: 43.4
fatty_acid: 38.5
inactive: 26.4
3-Methylbutyryl-CoA: 14.7

PKS_AT (4748..5026): mal

ATSignature: Malonyl-CoA

Top 3 matches:: Malonyl-CoA: 91.7%; inactive: 75.0%; Isobutyryl-CoA: 58.3%

minowa: Malonyl-CoA

Prediction, score:

Malonyl-CoA: 198.5
inactive: 93.5
Methylmalonyl-CoA: 72.7
Methoxymalonyl-CoA: 70.8
Ethylmalonyl-CoA: 51.2
Propionyl-CoA: 45.0
Isobutyryl-CoA: 44.0
Acetyl-CoA: 38.6
2-Methylbutyryl-CoA: 28.2
CHC-CoA: 22.9
Benzoyl-CoA: 22.0
fatty_acid: 21.2
trans-1,2-CPDA: 15.6
3-Methylbutyryl-CoA: 7.7

ngnN4: Pro

Search NORINE for peptide: strict or relaxed

AMP-binding (8..389): Pro

nrpys: Pro

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:: N/A
Single AA prediction:: N/A

Stachelhaus prediction details:

Stachelhaus sequence:: DLLYLALVCK
Nearest Stachelhaus code(s):: Pro DLLYLALVCK (97% 8Å match)
Stachelhaus code match:: 100% (strong)

Link to PARAS substrate predictor