Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	N	T	E	G	N	N	G	N	K	P	L	G	L	W	N	V	V	S	I	G	I	G	A	M	V	G	A	G	I	F	A	L	L	G	Q	A	A	L	L	M	E	A	S	T	W	V	A	F	A	F	G	G	I	V	A	M	F	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	Y	A	Y	A	R	L	G	A	S	Y	P	S	N	G	G	I	I	D	F	F	R	R	G	L	G	N	G	V	F	S	L	A	L	S	L	L	Y	L	L	T	L	A	V	S	I	A	M	V	A	R	A	F	G	A	Y	A	V	Q	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	H	E	G	S	Q	E	E	H	L	I	L	L	Y	A	L	G	I	I	A	V	M	T	L	F	N	S	L	S	N	H	A	V	G	R	L	E	V	I	L	V	G	I	K	M	M	I	L	L	L	L	I	I	A	G	V	W	S	L	Q
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	A	H	I	S	V	S	A	P	P	S	S	G	A	F	F	S	C	I	G	I	T	F	L	A	Y	A	G	F	G	M	M	A	N	A	A	D	K	V	K	D	P	Q	V	I	M	P	R	A	F	L	V	A	I	G	V	T	T	L	L
Secondary structure
SS confidence
Disorder					?							?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		Y	I	S	L	A	L	V	L	L	S	D	V	S	A	L	E	L	E	K	Y	A	D	T	A	V	A	Q	A	A	S	P	L	L	G	H	V	G	Y	V	I	V	V	I	G	A	L	L	A	T	A	S	A	I	N	A	N	L	F	A	V
Secondary structure
SS confidence
Disorder																		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		F	N	I	M	D	N	M	G	S	E	R	E	L	P	K	L	M	N	K	S	L	W	R	Q	S	T	W	G	N	I	I	V	V	V	L	I	M	L	M	T	A	A	L	N	L	G	S	L	A	S	V	A	S	A	T	F	L	I	C	Y
Secondary structure
SS confidence
Disorder																																												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		L	A	V	F	V	V	A	I	R	L	R	H	D	I	H	A	S	L	P	I	L	I	V	G	T	L	V	M	L	L	V	I	V	G	F	I	Y	S	L	W	S	Q	G	S	R	A	L	I	W	I	I	G	S	L	L	L	S	L	I	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430
Sequence		A	M	V	M	K	R	N	K	T	V
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: 10 - 429 Aligned: 419 Modelled: 419 Confidence: 100.0% Identity: 31% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 10 - 429 Aligned: 394 Modelled: 394 Confidence: 100.0% Identity: 18% 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 - 429 Aligned: 420 Modelled: 428 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 3dh4 chain A Region: 11 - 429 Aligned: 413 Modelled: 419 Confidence: 99.2% Identity: 12% 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 2xq2 chain A Region: 11 - 429 Aligned: 410 Modelled: 410 Confidence: 99.2% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 2a65 chain A domain 1 Region: 14 - 428 Aligned: 410 Modelled: 410 Confidence: 97.6% Identity: 15% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 2w8a chain C Region: 6 - 380 Aligned: 370 Modelled: 375 Confidence: 96.0% 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: 8 - 380 Aligned: 369 Modelled: 373 Confidence: 87.6% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2iub chain A domain 2 Region: 381 - 428 Aligned: 44 Modelled: 48 Confidence: 15.5% Identity: 11% Fold: Transmembrane helix hairpin Superfamily: Magnesium transport protein CorA, transmembrane region Family: Magnesium transport protein CorA, transmembrane region Phyre2 PDB 2wwb chain A Region: 210 - 428 Aligned: 213 Modelled: 219 Confidence: 9.5% Identity: 11% PDB header:ribosome Chain: A: PDB Molecule:protein transport protein sec61 subunit alpha isoform 1; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome Phyre2 PDB 1ujl chain A Region: 3 - 24 Aligned: 22 Modelled: 22 Confidence: 9.1% Identity: 23% 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 1 c3giaA_ 2 c3lrcC_ 3 c2jlnA_ 4 c3dh4A_ 5 c2xq2A_ 6 d2a65a1 7 c2w8aC_ 8 c3hfxA_ 9 d2iuba2 10 c2wwbA_ 11 c1ujlA_

Detailed template information

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

1 c3giaA_ 100.0 31 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 2 c3lrcC_ 100.0 18 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 c3dh4A_ 99.2 12 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 5 c2xq2A_ 99.2 12 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 6 d2a65a1 97.6 15 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 7 c2w8aC_ 96.0 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 c3hfxA_ 87.6 9 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 9 d2iuba2 15.5 11 Fold:Transmembrane helix hairpin Superfamily:Magnesium transport protein CorA, transmembrane region Family:Magnesium transport protein CorA, transmembrane region 10 c2wwbA_ 9.5 11 PDB header:ribosome Chain: A: PDB Molecule:protein transport protein sec61 subunit alpha isoform 1; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome 11 c1ujlA_ 9.1 23 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

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