Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	S	Y	L	I	L	R	L	A	G	P	M	Q	A	W	G	Q	P	T	F	E	G	T	R	P	T	G	R	F	P	T	R	S	G	L	L	G	L	L	G	A	C	L	G	I	Q	R	D	D	T	S	S	L	Q	A	L	S	E	S
Secondary structure
SS confidence
Disorder		?	?					?													?	?			?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	Q	F	A	V	R	C	D	E	L	I	L	D	D	R	R	V	S	V	T	G	L	R	D	Y	H	T	V	L	G	A	R	E	D	Y	R	G	L	K	S	H	E	T	I	Q	T	W	R	E	Y	L	C	D	A	S	F	T	V	A	L
Secondary structure
SS confidence
Disorder												?	?	?	?	?	?	?	?														?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		W	L	T	P	H	A	T	M	V	I	S	E	L	E	K	A	V	L	K	P	R	Y	T	P	Y	L	G	R	R	S	C	P	L	T	H	P	L	F	L	G	T	C	Q	A	S	D	P	Q	K	A	L	L	N	Y	E	P	V	G	G	D
Secondary structure
SS confidence
Disorder																																																										?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.
Sequence		I	Y	S	E	E	S	V	T	G	H	H	L	K	F	T	A	R	D	E	P	M	I	T	L	P	R	Q	F	A	S	R	E	W	Y	V	I	K	G	G	M	D	V	S	Q
Secondary structure
SS confidence
Disorder		?		?		?			?	?	?	?		?	?			?					?																?	?	?	?	?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 3kg4 chain A Region: 1 - 152 Aligned: 117 Modelled: 126 Confidence: 99.7% Identity: 18% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein from mannheimia2 succiniciproducens Phyre2 PDB 2iht chain A domain 1 Region: 124 - 162 Aligned: 39 Modelled: 39 Confidence: 64.8% Identity: 26% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 1ovm chain A domain 1 Region: 125 - 164 Aligned: 40 Modelled: 40 Confidence: 63.5% Identity: 18% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 1t9b chain A domain 1 Region: 124 - 162 Aligned: 39 Modelled: 39 Confidence: 52.7% Identity: 21% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 2ez9 chain A domain 1 Region: 128 - 162 Aligned: 35 Modelled: 35 Confidence: 51.5% Identity: 20% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 1zpd chain A domain 1 Region: 125 - 164 Aligned: 40 Modelled: 40 Confidence: 51.2% Identity: 18% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 1pvd chain A domain 1 Region: 125 - 164 Aligned: 40 Modelled: 40 Confidence: 49.7% Identity: 18% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 2dji chain A domain 1 Region: 130 - 162 Aligned: 33 Modelled: 33 Confidence: 41.4% Identity: 15% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 2ji7 chain A domain 1 Region: 124 - 162 Aligned: 39 Modelled: 39 Confidence: 35.2% Identity: 15% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 1fyv chain A Region: 116 - 157 Aligned: 42 Modelled: 42 Confidence: 29.3% Identity: 17% Fold: Flavodoxin-like Superfamily: Toll/Interleukin receptor TIR domain Family: Toll/Interleukin receptor TIR domain Phyre2 PDB 3h16 chain A Region: 114 - 157 Aligned: 44 Modelled: 44 Confidence: 26.2% Identity: 7% PDB header:signaling protein Chain: A: PDB Molecule:tir protein; PDBTitle: crystal structure of a bacteria tir domain, pdtir from2 paracoccus denitrificans Phyre2 PDB 1ozh chain A domain 1 Region: 125 - 160 Aligned: 36 Modelled: 36 Confidence: 24.9% Identity: 8% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 1q6z chain A domain 1 Region: 124 - 162 Aligned: 39 Modelled: 39 Confidence: 23.9% Identity: 26% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Pyruvate oxidase and decarboxylase, middle domain Phyre2 PDB 3ozi chain B Region: 115 - 164 Aligned: 50 Modelled: 50 Confidence: 22.9% Identity: 8% PDB header:plant protein Chain: B: PDB Molecule:l6tr; PDBTitle: crystal structure of the tir domain from the flax disease resistance2 protein l6 Phyre2 PDB 2vbg chain B Region: 124 - 164 Aligned: 41 Modelled: 41 Confidence: 22.1% Identity: 17% PDB header:lyase Chain: B: PDB Molecule:branched-chain alpha-ketoacid decarboxylase; PDBTitle: the complex structure of the branched-chain keto acid2 decarboxylase (kdca) from lactococcus lactis with 2r-1-3 hydroxyethyl-deazathdp Phyre2 PDB 2pan chain F Region: 124 - 162 Aligned: 39 Modelled: 34 Confidence: 18.0% Identity: 18% PDB header:lyase Chain: F: PDB Molecule:glyoxylate carboligase; PDBTitle: crystal structure of e. coli glyoxylate carboligase Phyre2 PDB 1pow chain A Region: 130 - 162 Aligned: 33 Modelled: 33 Confidence: 14.5% Identity: 21% PDB header:oxidoreductase(oxygen as acceptor) Chain: A: PDB Molecule:pyruvate oxidase; PDBTitle: the refined structures of a stabilized mutant and of wild-type2 pyruvate oxidase from lactobacillus plantarum Phyre2 PDB 1wxn chain A Region: 145 - 152 Aligned: 8 Modelled: 8 Confidence: 12.3% Identity: 50% PDB header:toxin Chain: A: PDB Molecule:toxin apetx2; PDBTitle: solution structure of apetx2, a specific peptide inhibitor2 of asic3 proton-gated channels Phyre2 PDB 2vbi chain F Region: 124 - 164 Aligned: 41 Modelled: 41 Confidence: 11.2% Identity: 15% PDB header:lyase Chain: F: PDB Molecule:pyruvate decarboxylase; PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus Phyre2 PDB 2nzw chain A domain 1 Region: 94 - 172 Aligned: 79 Modelled: 79 Confidence: 11.0% Identity: 14% Fold: UDP-Glycosyltransferase/glycogen phosphorylase Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase Family: FucT-like Phyre2 1 c3kg4A_ 2 d2ihta1 3 d1ovma1 4 d1t9ba1 5 d2ez9a1 6 d1zpda1 7 d1pvda1 8 d2djia1 9 d2ji7a1 10 d1fyva_ 11 c3h16A_ 12 d1ozha1 13 d1q6za1 14 c3oziB_ 15 c2vbgB_ 16 c2panF_ 17 c1powA_ 18 c1wxnA_ 19 c2vbiF_ 20 d2nzwa1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c3kg4A_ 99.7 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein from mannheimia2 succiniciproducens 2 d2ihta1 64.8 26 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 3 d1ovma1 63.5 18 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 4 d1t9ba1 52.7 21 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 5 d2ez9a1 51.5 20 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 6 d1zpda1 51.2 18 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 7 d1pvda1 49.7 18 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 8 d2djia1 41.4 15 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 9 d2ji7a1 35.2 15 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 10 d1fyva_ 29.3 17 Fold:Flavodoxin-like Superfamily:Toll/Interleukin receptor TIR domain Family:Toll/Interleukin receptor TIR domain 11 c3h16A_ 26.2 7 PDB header:signaling protein Chain: A: PDB Molecule:tir protein; PDBTitle: crystal structure of a bacteria tir domain, pdtir from2 paracoccus denitrificans 12 d1ozha1 24.9 8 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 13 d1q6za1 23.9 26 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain 14 c3oziB_ 22.9 8 PDB header:plant protein Chain: B: PDB Molecule:l6tr; PDBTitle: crystal structure of the tir domain from the flax disease resistance2 protein l6 15 c2vbgB_ 22.1 17 PDB header:lyase Chain: B: PDB Molecule:branched-chain alpha-ketoacid decarboxylase; PDBTitle: the complex structure of the branched-chain keto acid2 decarboxylase (kdca) from lactococcus lactis with 2r-1-3 hydroxyethyl-deazathdp 16 c2panF_ 18.0 18 PDB header:lyase Chain: F: PDB Molecule:glyoxylate carboligase; PDBTitle: crystal structure of e. coli glyoxylate carboligase 17 c1powA_ 14.5 21 PDB header:oxidoreductase(oxygen as acceptor) Chain: A: PDB Molecule:pyruvate oxidase; PDBTitle: the refined structures of a stabilized mutant and of wild-type2 pyruvate oxidase from lactobacillus plantarum 18 c1wxnA_ 12.3 50 PDB header:toxin Chain: A: PDB Molecule:toxin apetx2; PDBTitle: solution structure of apetx2, a specific peptide inhibitor2 of asic3 proton-gated channels 19 c2vbiF_ 11.2 15 PDB header:lyase Chain: F: PDB Molecule:pyruvate decarboxylase; PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus 20 d2nzwa1 11.0 14 Fold:UDP-Glycosyltransferase/glycogen phosphorylase Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase Family:FucT-like 21 d1fyxa_ not modelled 10.4 4 Fold:Flavodoxin-like Superfamily:Toll/Interleukin receptor TIR domain Family:Toll/Interleukin receptor TIR domain 22 c2ap7A_ not modelled 10.2 60 PDB header:antibiotic Chain: A: PDB Molecule:bombinin h2; PDBTitle: solution structure of bombinin h2 in dpc micelles 23 c3pdiG_ not modelled 10.1 13 PDB header:protein binding Chain: G: PDB Molecule:nitrogenase mofe cofactor biosynthesis protein nife; PDBTitle: precursor bound nifen 24 c2ap8A_ not modelled 10.1 60 PDB header:antibiotic Chain: A: PDB Molecule:bombinin h4; PDBTitle: solution structure of bombinin h4 in dpc micelles 25 c2w93A_ not modelled 9.6 17 PDB header:lyase Chain: A: PDB Molecule:pyruvate decarboxylase isozyme 1; PDBTitle: crystal structure of the saccharomyces cerevisiae pyruvate2 decarboxylase variant e477q in complex with the surrogate3 pyruvamide 26 c2djiA_ not modelled 9.0 15 PDB header:oxidoreductase Chain: A: PDB Molecule:pyruvate oxidase; PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad 27 c2z5vA_ not modelled 8.6 16 PDB header:immune system Chain: A: PDB Molecule:myeloid differentiation primary response protein PDBTitle: solution structure of the tir domain of human myd88 28 c2pgnA_ not modelled 7.7 24 PDB header:hydrolase Chain: A: PDB Molecule:cyclohexane-1,2-dione hydrolase (cdh); PDBTitle: the crystal structure of fad and thdp-dependent cyclohexane-1,2-dione2 hydrolase in complex with cyclohexane-1,2-dione 29 d1m1na_ not modelled 7.6 7 Fold:Chelatase-like Superfamily:"Helical backbone" metal receptor Family:Nitrogenase iron-molybdenum protein 30 d2fug61 not modelled 7.1 17 Fold:HydA/Nqo6-like Superfamily:HydA/Nqo6-like Family:Nq06-like 31 d1vkya_ not modelled 7.0 28 Fold:QueA-like Superfamily:QueA-like Family:QueA-like 32 d1qh8a_ not modelled 6.9 7 Fold:Chelatase-like Superfamily:"Helical backbone" metal receptor Family:Nitrogenase iron-molybdenum protein 33 c3le4A_ not modelled 6.8 27 PDB header:nuclear protein Chain: A: PDB Molecule:microprocessor complex subunit dgcr8; PDBTitle: crystal structure of the dgcr8 dimerization domain 34 c1jscA_ not modelled 6.6 21 PDB header:lyase Chain: A: PDB Molecule:acetohydroxy-acid synthase; PDBTitle: crystal structure of the catalytic subunit of yeast2 acetohydroxyacid synthase: a target for herbicidal3 inhibitors 35 c1ovmC_ not modelled 5.9 18 PDB header:lyase Chain: C: PDB Molecule:indole-3-pyruvate decarboxylase; PDBTitle: crystal structure of indolepyruvate decarboxylase from2 enterobacter cloacae 36 d1wdia_ not modelled 5.5 38 Fold:QueA-like Superfamily:QueA-like Family:QueA-like 37 c3cf4G_ not modelled 5.2 9 PDB header:oxidoreductase Chain: G: PDB Molecule:acetyl-coa decarboxylase/synthase epsilon subunit; PDBTitle: structure of the codh component of the m. barkeri acds complex

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0