Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	H	N	V	T	P	N	T	S	R	V	E	L	R	K	T	L	T	L	V	P	V	V	M	M	G	L	A	Y	M	Q	P	M	T	L	F	D	T	F	G	I	V	S	G	L	T	D	G	H	V	P	T	A	Y	A	F	A	L	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	I	L	F	T	A	L	S	Y	G	K	L	V	R	R	Y	P	S	A	G	S	A	Y	T	Y	A	Q	K	S	I	S	P	T	V	G	F	M	V	G	W	S	S	L	L	D	Y	L	F	A	P	M	I	N	I	L	L	A	K	I	Y
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	E	A	L	V	P	S	I	P	S	W	M	F	V	V	A	L	V	A	F	M	T	A	F	N	L	R	S	L	K	S	V	A	N	F	N	T	V	I	V	V	L	Q	V	V	L	I	A	V	I	L	G	M	V	V	Y	G	V	F	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	E	G	A	G	T	L	A	S	T	R	P	F	W	S	G	D	A	H	V	I	P	M	I	T	G	A	T	I	L	C	F	S	F	T	G	F	D	G	I	S	N	L	S	E	E	T	K	D	A	E	R	V	I	P	R	A	I	F	L
Secondary structure
SS confidence
Disorder				?	?	?		?	?		?		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	A	L	I	G	G	M	I	F	I	F	A	T	Y	F	L	Q	L	Y	F	P	D	I	S	R	F	K	D	P	D	A	S	Q	P	E	I	M	L	Y	V	A	G	K	A	F	Q	V	G	A	L	I	F	S	T	I	T	V	L	A	S
Secondary structure
SS confidence
Disorder																											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	M	A	A	H	A	G	V	A	R	L	M	Y	V	M	G	R	D	G	V	F	P	K	S	F	F	G	Y	V	H	P	K	W	R	T	P	A	M	N	I	I	L	V	G	A	I	A	L	L	A	I	N	F	D	L	V	M	A	T	A
Secondary structure
SS confidence
Disorder								?																																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		L	I	N	F	G	A	L	V	A	F	T	F	V	N	L	S	V	I	S	Q	F	W	I	R	E	K	R	N	K	T	L	K	D	H	F	Q	Y	L	F	L	P	M	C	G	A	L	T	V	G	A	L	W	V	N	L	E	E	S	S	M
Secondary structure
SS confidence
Disorder																											?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.
Sequence		V	L	G	L	I	W	A	A	I	G	L	I	Y	L	A	C	V	T	K	S	F	R	N	P	V	P	Q	Y	E	D	V	A
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: 15 - 452 Aligned: 424 Modelled: 424 Confidence: 100.0% Identity: 20% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 15 - 445 Aligned: 397 Modelled: 397 Confidence: 100.0% Identity: 16% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2jln chain A Region: 2 - 450 Aligned: 439 Modelled: 439 Confidence: 100.0% Identity: 11% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 2xq2 chain A Region: 16 - 451 Aligned: 419 Modelled: 436 Confidence: 99.5% Identity: 10% 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: 16 - 450 Aligned: 425 Modelled: 425 Confidence: 99.5% 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: 5 - 404 Aligned: 389 Modelled: 396 Confidence: 97.1% Identity: 13% 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 2a65 chain A domain 1 Region: 19 - 442 Aligned: 417 Modelled: 417 Confidence: 96.3% Identity: 10% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 3hfx chain A Region: 52 - 390 Aligned: 333 Modelled: 339 Confidence: 92.3% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 3m7b chain A Region: 283 - 450 Aligned: 160 Modelled: 168 Confidence: 33.5% Identity: 11% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha Phyre2 PDB 2rdd chain B Region: 424 - 451 Aligned: 28 Modelled: 28 Confidence: 23.6% Identity: 14% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 1ujl chain A Region: 8 - 29 Aligned: 22 Modelled: 22 Confidence: 20.7% Identity: 5% PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily h PDBTitle: solution structure of the herg k+ channel s5-p2 extracellular linker Phyre2 PDB 2jo1 chain A Region: 420 - 450 Aligned: 31 Modelled: 31 Confidence: 12.1% Identity: 19% PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles Phyre2 PDB 3qnq chain D Region: 414 - 450 Aligned: 37 Modelled: 37 Confidence: 10.1% Identity: 16% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 2knc chain A Region: 421 - 450 Aligned: 30 Modelled: 30 Confidence: 9.8% Identity: 23% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2klu chain A Region: 422 - 447 Aligned: 26 Modelled: 26 Confidence: 6.1% Identity: 19% PDB header:immune system, membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: nmr structure of the transmembrane and cytoplasmic domains2 of human cd4 Phyre2 PDB 2k2w chain A Region: 433 - 449 Aligned: 17 Modelled: 17 Confidence: 5.7% Identity: 18% PDB header:cell cycle Chain: A: PDB Molecule:recombination and dna repair protein; PDBTitle: second brct domain of nbs1 Phyre2 1 c3giaA_ 2 c3lrcC_ 3 c2jlnA_ 4 c2xq2A_ 5 c3dh4A_ 6 c2w8aC_ 7 d2a65a1 8 c3hfxA_ 9 c3m7bA_ 10 c2rddB_ 11 c1ujlA_ 12 c2jo1A_ 13 c3qnqD_ 14 c2kncA_ 15 c2kluA_ 16 c2k2wA_

Detailed template information

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

1 c3giaA_ 100.0 20 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 2 c3lrcC_ 100.0 16 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 3 c2jlnA_ 100.0 11 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 4 c2xq2A_ 99.5 10 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 5 c3dh4A_ 99.5 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 6 c2w8aC_ 97.1 13 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 7 d2a65a1 96.3 10 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 8 c3hfxA_ 92.3 11 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 9 c3m7bA_ 33.5 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha 10 c2rddB_ 23.6 14 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 11 c1ujlA_ 20.7 5 PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily h PDBTitle: solution structure of the herg k+ channel s5-p2 extracellular linker 12 c2jo1A_ 12.1 19 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 13 c3qnqD_ 10.1 16 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 14 c2kncA_ 9.8 23 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 15 c2kluA_ 6.1 19 PDB header:immune system, membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: nmr structure of the transmembrane and cytoplasmic domains2 of human cd4 16 c2k2wA_ 5.7 18 PDB header:cell cycle Chain: A: PDB Molecule:recombination and dna repair protein; PDBTitle: second brct domain of nbs1

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