Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	I	A	S	N	K	G	V	I	A	D	A	S	T	P	A	G	R	A	G	M	S	E	S	E	W	R	E	A	I	K	F	D	S	T	D	T	G	W	V	I	M	S	I	G	M	A	I	G	A	G	I	V	F	L	P	V	Q	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	L	M	G	L	W	V	F	L	L	S	S	V	I	G	Y	P	A	M	Y	L	F	Q	R	L	F	I	N	T	L	A	E	S	P	E	C	K	D	Y	P	S	V	I	S	G	Y	L	G	K	N	W	G	I	L	L	G	A	L	Y	F
Secondary structure
SS confidence
Disorder																																	?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	M	L	V	I	W	M	F	V	Y	S	T	A	I	T	N	D	S	A	S	Y	L	H	T	F	G	V	T	E	G	L	L	S	D	S	P	F	Y	G	L	V	L	I	C	I	L	V	A	I	S	S	R	G	E	K	L	L	F	K	I
Secondary structure
SS confidence
Disorder														?	?													?	?	?	?	?	?	?	?																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	T	G	M	V	L	T	K	L	L	V	V	A	A	L	G	V	S	M	V	G	M	W	H	L	Y	N	V	G	S	L	P	P	L	G	L	L	V	K	N	A	I	I	T	L	P	F	T	L	T	S	I	L	F	I	Q	T	L	S	P
Secondary structure
SS confidence
Disorder																					?	?					?	?	?				?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		M	V	I	S	Y	R	S	R	E	K	S	I	E	V	A	R	H	K	A	L	R	A	M	N	I	A	F	G	I	L	F	V	T	V	F	F	Y	A	V	S	F	T	L	A	M	G	H	D	E	A	V	K	A	Y	E	Q	N	I	S	A
Secondary structure
SS confidence
Disorder						?		?	?	?	?	?	?	?	?																																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	A	I	A	A	Q	F	I	S	G	D	G	A	A	W	V	K	V	V	S	V	I	L	N	I	F	A	V	M	T	A	F	F	G	V	Y	L	G	F	R	E	A	T	Q	G	I	V	M	N	I	L	R	R	K	M	P	A	E	K	I
Secondary structure
SS confidence
Disorder									?	?		?																							?																		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		N	E	N	L	V	Q	R	G	I	M	I	F	A	I	L	L	A	W	S	A	I	V	L	N	A	P	V	L	S	F	T	S	I	C	S	P	I	F	G	M	V	G	C	L	I	P	A	W	L	V	Y	K	V	P	A	L	H	K	Y	K
Secondary structure
SS confidence
Disorder		?	?	?																																																				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.
Sequence		G	M	S	L	Y	L	I	I	V	T	G	L	L	L	C	V	S	P	F	L	A	F	S
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 3gia chain A Region: 31 - 442 Aligned: 390 Modelled: 390 Confidence: 100.0% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 29 - 440 Aligned: 371 Modelled: 371 Confidence: 100.0% Identity: 14% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2jln chain A Region: 18 - 422 Aligned: 382 Modelled: 392 Confidence: 99.9% Identity: 11% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 2a65 chain A domain 1 Region: 24 - 421 Aligned: 380 Modelled: 390 Confidence: 99.1% Identity: 13% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 2xq2 chain A Region: 42 - 440 Aligned: 385 Modelled: 385 Confidence: 99.0% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 3dh4 chain A Region: 19 - 440 Aligned: 409 Modelled: 412 Confidence: 98.6% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus Phyre2 PDB 2w8a chain C Region: 15 - 420 Aligned: 387 Modelled: 370 Confidence: 92.3% Identity: 11% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 2f5z chain K Region: 3 - 28 Aligned: 26 Modelled: 26 Confidence: 30.9% Identity: 23% PDB header:oxidoreductase/protein binding Chain: K: PDB Molecule:pyruvate dehydrogenase protein x component; PDBTitle: crystal structure of human dihydrolipoamide dehydrogenase2 (e3) complexed to the e3-binding domain of human e3-3 binding protein Phyre2 PDB 1zy8 chain M Region: 3 - 28 Aligned: 26 Modelled: 26 Confidence: 30.8% Identity: 23% PDB header:oxidoreductase Chain: M: PDB Molecule:pyruvate dehydrogenase protein x component, PDBTitle: the crystal structure of dihydrolipoamide dehydrogenase and2 dihydrolipoamide dehydrogenase-binding protein (didomain)3 subcomplex of human pyruvate dehydrogenase complex. Phyre2 PDB 3hfx chain A Region: 15 - 418 Aligned: 387 Modelled: 387 Confidence: 28.4% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2hg5 chain D Region: 10 - 66 Aligned: 36 Modelled: 36 Confidence: 26.8% Identity: 19% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 2eq7 chain C Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 15.5% Identity: 24% PDB header:oxidoreductase Chain: C: PDB Molecule:2-oxoglutarate dehydrogenase e2 component; PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdo Phyre2 PDB 2eq8 chain C Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 9.5% Identity: 28% PDB header:oxidoreductase Chain: C: PDB Molecule:pyruvate dehydrogenase complex, dihydrolipoamide PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdp Phyre2 PDB 3eab chain K Region: 2 - 15 Aligned: 14 Modelled: 14 Confidence: 9.2% Identity: 29% PDB header:cell cycle Chain: K: PDB Molecule:chmp1b; PDBTitle: crystal structure of spastin mit in complex with escrt iii Phyre2 PDB 2eq9 chain C Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 9.0% Identity: 20% PDB header:oxidoreductase Chain: C: PDB Molecule:pyruvate dehydrogenase complex, dihydrolipoamide PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdb Phyre2 PDB 1w85 chain I Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 9.0% Identity: 28% Fold: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Phyre2 PDB 3dv0 chain I Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 9.0% Identity: 28% PDB header:oxidoreductase/transferase Chain: I: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: snapshots of catalysis in the e1 subunit of the pyruvate2 dehydrogenase multi-enzyme complex Phyre2 PDB 2fqm chain A domain 1 Region: 16 - 39 Aligned: 24 Modelled: 24 Confidence: 8.2% Identity: 29% Fold: Phosphoprotein oligomerization domain-like Superfamily: Phosphoprotein oligomerization domain-like Family: Phosphoprotein oligomerization domain-like Phyre2 PDB 1w3d chain A Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 8.0% Identity: 28% PDB header:transferase Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: nmr structure of the peripheral-subunit binding domain of2 bacillus stearothermophilus e2p Phyre2 PDB 2cyu chain A domain 1 Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 8.0% Identity: 20% Fold: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family: Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Phyre2 1 c3giaA_ 2 c3lrcC_ 3 c2jlnA_ 4 d2a65a1 5 c2xq2A_ 6 c3dh4A_ 7 c2w8aC_ 8 c2f5zK_ 9 c1zy8M_ 10 c3hfxA_ 11 c2hg5D_ 12 c2eq7C_ 13 c2eq8C_ 14 c3eabK_ 15 c2eq9C_ 16 d1w85i_ 17 c3dv0I_ 18 d2fqma1 19 c1w3dA_ 20 d2cyua1 21 22 23 24 25

Detailed template information

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

1 c3giaA_ 100.0 14 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 2 c3lrcC_ 100.0 14 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 3 c2jlnA_ 99.9 11 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 4 d2a65a1 99.1 13 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 5 c2xq2A_ 99.0 12 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 6 c3dh4A_ 98.6 10 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 7 c2w8aC_ 92.3 11 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 8 c2f5zK_ 30.9 23 PDB header:oxidoreductase/protein binding Chain: K: PDB Molecule:pyruvate dehydrogenase protein x component; PDBTitle: crystal structure of human dihydrolipoamide dehydrogenase2 (e3) complexed to the e3-binding domain of human e3-3 binding protein 9 c1zy8M_ 30.8 23 PDB header:oxidoreductase Chain: M: PDB Molecule:pyruvate dehydrogenase protein x component, PDBTitle: the crystal structure of dihydrolipoamide dehydrogenase and2 dihydrolipoamide dehydrogenase-binding protein (didomain)3 subcomplex of human pyruvate dehydrogenase complex. 10 c3hfxA_ 28.4 12 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 11 c2hg5D_ 26.8 19 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 12 c2eq7C_ 15.5 24 PDB header:oxidoreductase Chain: C: PDB Molecule:2-oxoglutarate dehydrogenase e2 component; PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdo 13 c2eq8C_ 9.5 28 PDB header:oxidoreductase Chain: C: PDB Molecule:pyruvate dehydrogenase complex, dihydrolipoamide PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdp 14 c3eabK_ 9.2 29 PDB header:cell cycle Chain: K: PDB Molecule:chmp1b; PDBTitle: crystal structure of spastin mit in complex with escrt iii 15 c2eq9C_ 9.0 20 PDB header:oxidoreductase Chain: C: PDB Molecule:pyruvate dehydrogenase complex, dihydrolipoamide PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdb 16 d1w85i_ 9.0 28 Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 17 c3dv0I_ 9.0 28 PDB header:oxidoreductase/transferase Chain: I: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: snapshots of catalysis in the e1 subunit of the pyruvate2 dehydrogenase multi-enzyme complex 18 d2fqma1 8.2 29 Fold:Phosphoprotein oligomerization domain-like Superfamily:Phosphoprotein oligomerization domain-like Family:Phosphoprotein oligomerization domain-like 19 c1w3dA_ 8.0 28 PDB header:transferase Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: nmr structure of the peripheral-subunit binding domain of2 bacillus stearothermophilus e2p 20 d2cyua1 8.0 20 Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 21 d1w4ha1 not modelled 7.9 20 Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 22 d1bala_ not modelled 7.3 20 Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 23 c1w4kA_ not modelled 6.8 24 PDB header:transferase Chain: A: PDB Molecule:pyruvate dehydrogenase e2; PDBTitle: peripheral-subunit binding domains from mesophilic,2 thermophilic, and hyperthermophilic bacteria fold by3 ultrafast, apparently two-state transitions 24 c1z9iA_ not modelled 6.8 15 PDB header:transferase Chain: A: PDB Molecule:epidermal growth factor receptor; PDBTitle: a structural model for the membrane-bound form of the2 juxtamembrane domain of the epidermal growth factor3 receptor 25 c2z3xC_ not modelled 6.2 43 PDB header:dna binding protein/dna Chain: C: PDB Molecule:small, acid-soluble spore protein c; PDBTitle: structure of a protein-dna complex essential for dna2 protection in spore of bacillus species

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