Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	I	S	T	P	M	L	V	T	F	C	V	Y	I	F	G	M	I	L	I	G	F	I	A	W	R	S	T	K	N	F	D	D	Y	I	L	G	G	R	S	L	G	P	F	V	T	A	L	S	A	G	A	S	D	M	S	G	W	L
Secondary structure
SS confidence
Disorder		?	?	?	?																							?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	M	G	L	P	G	A	V	F	L	S	G	I	S	E	S	W	I	A	I	G	L	T	L	G	A	W	I	N	W	K	L	V	A	G	R	L	R	V	H	T	E	Y	N	N	N	A	L	T	L	P	D	Y	F	T	G	R	F	E	D
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	S	R	I	L	R	I	I	S	A	L	V	I	L	L	F	F	T	I	Y	C	A	S	G	I	V	A	G	A	R	L	F	E	S	T	F	G	M	S	Y	E	T	A	L	W	A	G	A	A	A	T	I	L	Y	T	F	I	G	G	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	A	V	S	W	T	D	T	V	Q	A	S	L	M	I	F	A	L	I	L	T	P	V	I	V	I	I	S	V	G	G	F	G	D	S	L	E	V	I	K	Q	K	S	I	E	N	V	D	M	L	K	G	L	N	F	V	A	I	I	S
Secondary structure
SS confidence
Disorder																																											?		?	?			?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	M	G	W	G	L	G	Y	F	G	Q	P	H	I	L	A	R	F	M	A	A	D	S	H	H	S	I	V	H	A	R	R	I	S	M	T	W	M	I	L	C	L	A	G	A	V	A	V	G	F	F	G	I	A	Y	F	N	D	H	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	L	A	G	A	V	N	Q	N	A	E	R	V	F	I	E	L	A	Q	I	L	F	N	P	W	I	A	G	I	L	L	S	A	I	L	A	A	V	M	S	T	L	S	C	Q	L	L	V	C	S	S	A	I	T	E	D	L	Y	K	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		F	L	R	K	H	A	S	Q	K	E	L	V	W	V	G	R	V	M	V	L	V	V	A	L	V	A	I	A	L	A	A	N	P	E	N	R	V	L	G	L	V	S	Y	A	W	A	G	F	G	A	A	F	G	P	V	V	L	F	S	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		M	W	S	R	M	T	R	N	G	A	L	A	G	M	I	I	G	A	L	T	V	I	V	W	K	Q	F	G	W	L	G	L	Y	E	I	I	P	G	F	I	F	G	S	I	G	I	V	V	F	S	L	L	G	K	A	P	S	A	A	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.
Sequence		Q	K	R	F	A	E	A	D	A	H	Y	H	S	A	P	P	S	R	L	Q	E	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 2xq2 chain A Region: 4 - 498 Aligned: 473 Modelled: 473 Confidence: 100.0% Identity: 16% 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: 26 - 497 Aligned: 465 Modelled: 453 Confidence: 100.0% Identity: 15% 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 2jln chain A Region: 28 - 490 Aligned: 435 Modelled: 435 Confidence: 99.7% Identity: 11% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 3gia chain A Region: 39 - 472 Aligned: 413 Modelled: 423 Confidence: 99.7% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 39 - 478 Aligned: 396 Modelled: 396 Confidence: 99.3% Identity: 12% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2w8a chain C Region: 6 - 421 Aligned: 402 Modelled: 384 Confidence: 98.2% Identity: 10% 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 - 421 Aligned: 406 Modelled: 406 Confidence: 97.6% Identity: 13% 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: 43 - 424 Aligned: 373 Modelled: 373 Confidence: 96.8% Identity: 12% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 3b9y chain A Region: 337 - 501 Aligned: 161 Modelled: 164 Confidence: 29.7% Identity: 17% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 3rlb chain A Region: 373 - 478 Aligned: 104 Modelled: 106 Confidence: 22.4% Identity: 20% PDB header:thiamine-binding protein Chain: A: PDB Molecule:thit; PDBTitle: crystal structure at 2.0 a of the s-component for thiamin from an ecf-2 type abc transporter Phyre2 PDB 3mk7 chain F Region: 4 - 66 Aligned: 63 Modelled: 63 Confidence: 14.1% Identity: 19% PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 PDB 3hd6 chain A Region: 340 - 474 Aligned: 135 Modelled: 135 Confidence: 8.7% Identity: 10% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 2k9y chain B Region: 12 - 30 Aligned: 19 Modelled: 19 Confidence: 7.7% Identity: 26% 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: 12 - 30 Aligned: 19 Modelled: 19 Confidence: 7.7% Identity: 26% 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 1u7g chain A Region: 340 - 475 Aligned: 135 Modelled: 132 Confidence: 7.7% Identity: 16% Fold: Ammonium transporter Superfamily: Ammonium transporter Family: Ammonium transporter Phyre2 PDB 4a2n chain B Region: 1 - 106 Aligned: 106 Modelled: 106 Confidence: 6.4% Identity: 9% PDB header:transferase Chain: B: PDB Molecule:isoprenylcysteine carboxyl methyltransferase; PDBTitle: crystal structure of ma-icmt Phyre2 PDB 3chx chain F Region: 73 - 118 Aligned: 46 Modelled: 46 Confidence: 5.3% Identity: 22% PDB header:membrane protein Chain: F: PDB Molecule:pmoa; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) Phyre2 PDB 3p5n chain A Region: 372 - 483 Aligned: 110 Modelled: 112 Confidence: 5.3% Identity: 21% PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter Phyre2 PDB 1yew chain F Region: 73 - 118 Aligned: 46 Modelled: 46 Confidence: 5.2% Identity: 20% PDB header:oxidoreductase, membrane protein Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit; PDBTitle: crystal structure of particulate methane monooxygenase Phyre2 PDB 1a87 chain A Region: 429 - 489 Aligned: 61 Modelled: 61 Confidence: 5.2% Identity: 13% PDB header:bacteriocin Chain: A: PDB Molecule:colicin n; PDBTitle: colicin n Phyre2 1 c2xq2A_ 2 c3dh4A_ 3 c2jlnA_ 4 c3giaA_ 5 c3lrcC_ 6 c2w8aC_ 7 c3hfxA_ 8 d2a65a1 9 c3b9yA_ 10 c3rlbA_ 11 c3mk7F_ 12 c3hd6A_ 13 c2k9yB_ 14 c2k9yA_ 15 d1u7ga_ 16 c4a2nB_ 17 c3chxF_ 18 c3p5nA_ 19 c1yewF_ 20 c1a87A_ 21 22

Detailed template information

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

1 c2xq2A_ 100.0 16 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 2 c3dh4A_ 100.0 15 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 c2jlnA_ 99.7 11 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 4 c3giaA_ 99.7 10 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 5 c3lrcC_ 99.3 12 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 6 c2w8aC_ 98.2 10 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_ 97.6 13 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 8 d2a65a1 96.8 12 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 9 c3b9yA_ 29.7 17 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 10 c3rlbA_ 22.4 20 PDB header:thiamine-binding protein Chain: A: PDB Molecule:thit; PDBTitle: crystal structure at 2.0 a of the s-component for thiamin from an ecf-2 type abc transporter 11 c3mk7F_ 14.1 19 PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase 12 c3hd6A_ 8.7 10 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 13 c2k9yB_ 7.7 26 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 14 c2k9yA_ 7.7 26 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 15 d1u7ga_ 7.7 16 Fold:Ammonium transporter Superfamily:Ammonium transporter Family:Ammonium transporter 16 c4a2nB_ 6.4 9 PDB header:transferase Chain: B: PDB Molecule:isoprenylcysteine carboxyl methyltransferase; PDBTitle: crystal structure of ma-icmt 17 c3chxF_ 5.3 22 PDB header:membrane protein Chain: F: PDB Molecule:pmoa; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) 18 c3p5nA_ 5.3 21 PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter 19 c1yewF_ 5.2 20 PDB header:oxidoreductase, membrane protein Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit; PDBTitle: crystal structure of particulate methane monooxygenase 20 c1a87A_ 5.2 13 PDB header:bacteriocin Chain: A: PDB Molecule:colicin n; PDBTitle: colicin n 21 d1a87a_ not modelled 5.2 13 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 22 c3o7xC_ not modelled 5.1 12 PDB header:rna binding protein Chain: C: PDB Molecule:piwi-like protein 2; PDBTitle: crystal structure of human hili paz domain

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