Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	L	E	V	I	L	P	L	V	A	Y	L	V	V	V	F	G	I	S	V	Y	A	M	R	K	R	S	T	G	T	F	L	N	E	Y	F	L	G	S	R	S	M	G	G	I	V	L	A	M	T	L	T	A	T	Y	I	S	A	S
Secondary structure
SS confidence
Disorder		?	?																								?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	F	I	G	G	P	G	A	A	Y	K	Y	G	L	G	W	V	L	L	A	M	I	Q	L	P	A	V	W	L	S	L	G	I	L	G	K	K	F	A	I	L	A	R	R	Y	N	A	V	T	L	N	D	M	L	F	A	R	Y	Q	S
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	L	L	V	W	L	A	S	L	S	L	L	V	A	F	V	G	A	M	T	V	Q	F	I	G	G	A	R	L	L	E	T	A	A	G	I	P	Y	E	T	G	L	L	I	F	G	I	S	I	A	L	Y	T	A	F	G	G	F	R	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	V	L	N	D	T	M	Q	G	L	V	M	L	I	G	T	V	V	L	L	I	G	V	V	H	A	A	G	G	L	S	N	A	V	Q	T	L	Q	T	I	D	P	Q	L	V	T	P	Q	G	A	D	D	I	L	S	P	A	F	M	T
Secondary structure
SS confidence
Disorder																																											?							?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	F	W	V	L	V	C	F	G	V	I	G	L	P	H	T	A	V	R	C	I	S	Y	K	D	S	K	A	V	H	R	G	I	I	I	G	T	I	V	V	A	I	L	M	F	G	M	H	L	A	G	A	L	G	R	A	V	I	P	D
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	T	V	P	D	L	V	I	P	T	L	M	V	K	V	L	P	P	F	A	A	G	I	F	L	A	A	P	M	A	A	I	M	S	T	I	N	A	Q	L	L	Q	S	S	A	T	I	I	K	D	L	Y	L	N	I	R	P	D	Q	M
Secondary structure
SS confidence
Disorder																																																											?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		Q	N	E	T	R	L	K	R	M	S	A	V	I	T	L	V	L	G	A	L	L	L	L	A	A	W	K	P	P	E	M	I	I	W	L	N	L	L	A	F	G	G	L	E	A	V	F	L	W	P	L	V	L	G	L	Y	W	E	R	A
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		N	A	K	G	A	L	S	A	M	I	V	G	G	V	L	Y	A	V	L	A	T	L	N	I	Q	Y	L	G	F	H	P	I	V	P	S	L	L	L	S	L	L	A	F	L	V	G	N	R	F	G	T	S	V	P	Q	A	T	V	L	T
Secondary structure
SS confidence
Disorder																									?		?																											?							?
Disorder confidence
		.	.	.
Sequence		T	D	K
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 2xq2 chain A Region: 2 - 483 Aligned: 459 Modelled: 459 Confidence: 100.0% Identity: 18% 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: 24 - 483 Aligned: 455 Modelled: 440 Confidence: 100.0% Identity: 16% 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 3gia chain A Region: 40 - 474 Aligned: 419 Modelled: 419 Confidence: 99.8% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 2jln chain A Region: 26 - 482 Aligned: 435 Modelled: 435 Confidence: 99.7% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 3lrc chain C Region: 41 - 473 Aligned: 395 Modelled: 395 Confidence: 99.4% Identity: 11% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2w8a chain C Region: 3 - 416 Aligned: 396 Modelled: 411 Confidence: 99.2% 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 3hfx chain A Region: 2 - 416 Aligned: 400 Modelled: 400 Confidence: 98.8% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2a65 chain A domain 1 Region: 44 - 419 Aligned: 359 Modelled: 359 Confidence: 96.4% Identity: 12% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 3mk7 chain F Region: 3 - 66 Aligned: 64 Modelled: 64 Confidence: 15.3% Identity: 8% PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 PDB 2k9y chain B Region: 10 - 28 Aligned: 19 Modelled: 19 Confidence: 7.1% Identity: 32% PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 2k9y chain A Region: 10 - 28 Aligned: 19 Modelled: 19 Confidence: 7.1% Identity: 32% PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 1eys chain H domain 2 Region: 7 - 36 Aligned: 26 Modelled: 30 Confidence: 6.8% Identity: 23% Fold: Single transmembrane helix Superfamily: Photosystem II reaction centre subunit H, transmembrane region Family: Photosystem II reaction centre subunit H, transmembrane region Phyre2 PDB 1j4n chain A Region: 270 - 482 Aligned: 207 Modelled: 213 Confidence: 5.8% Identity: 12% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 1 c2xq2A_ 2 c3dh4A_ 3 c3giaA_ 4 c2jlnA_ 5 c3lrcC_ 6 c2w8aC_ 7 c3hfxA_ 8 d2a65a1 9 c3mk7F_ 10 c2k9yB_ 11 c2k9yA_ 12 d1eysh2 13 d1j4na_

Detailed template information

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

1 c2xq2A_ 100.0 18 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 2 c3dh4A_ 100.0 16 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 3 c3giaA_ 99.8 12 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 4 c2jlnA_ 99.7 13 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 5 c3lrcC_ 99.4 11 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 6 c2w8aC_ 99.2 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 7 c3hfxA_ 98.8 14 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 8 d2a65a1 96.4 12 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 9 c3mk7F_ 15.3 8 PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase 10 c2k9yB_ 7.1 32 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 11 c2k9yA_ 7.1 32 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 12 d1eysh2 6.8 23 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 13 d1j4na_ 5.8 12 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like

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