Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	S	T	L	I	S	T	R	P	D	E	G	T	L	S	L	S	R	A	R	R	A	A	L	G	S	F	A	G	A	V	V	D	W	Y	D	F	L	L	Y	G	I	T	A	A	L	V	F	N	R	E	F	F	P	Q	V	S	P	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	G	T	L	A	A	F	A	T	F	G	V	G	F	L	F	R	P	L	G	G	V	I	F	G	H	F	G	D	R	L	G	R	K	R	M	L	M	L	T	V	W	M	M	G	I	A	T	A	L	I	G	I	L	P	S	F	S	T	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	W	W	A	P	I	L	L	V	T	L	R	A	I	Q	G	F	A	V	G	G	E	W	G	G	A	A	L	L	S	V	E	S	A	P	K	N	K	K	A	F	Y	S	S	G	V	Q	V	G	Y	G	V	G	L	L	L	S	T	G	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	S	L	I	S	M	M	T	T	D	E	Q	F	L	S	W	G	W	R	I	P	F	L	F	S	I	V	L	V	L	G	A	L	W	V	R	N	G	M	E	E	S	A	E	F	E	Q	Q	Q	H	Y	Q	A	A	A	K	K	R	I	P
Secondary structure
SS confidence
Disorder																																																			?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	I	E	A	L	L	R	H	P	G	A	F	L	K	I	I	A	L	R	L	C	E	L	L	T	M	Y	I	V	T	A	F	A	L	N	Y	S	T	Q	N	M	G	L	P	R	E	L	F	L	N	I	G	L	L	V	G	G	L	S	C
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	T	I	P	C	F	A	W	L	A	D	R	F	G	R	R	R	V	Y	I	T	G	T	L	I	G	T	L	S	A	F	P	F	F	M	A	L	E	A	Q	S	I	F	W	I	V	F	F	S	I	M	L	A	N	I	A	H	D	M	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		V	C	V	Q	Q	P	M	F	T	E	M	F	G	A	S	Y	R	Y	S	G	A	G	V	G	Y	Q	V	A	S	V	V	G	G	G	F	T	P	F	I	A	A	A	L	I	T	Y	F	A	G	N	W	H	S	V	A	I	Y	L	L	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.
Sequence		G	C	L	I	S	A	M	T	A	L	L	M	K	D	S	Q	R	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 1pw4 chain A Region: 1 - 437 Aligned: 421 Modelled: 433 Confidence: 100.0% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 3o7p chain A Region: 22 - 435 Aligned: 393 Modelled: 414 Confidence: 100.0% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) Phyre2 PDB 1pv7 chain A Region: 20 - 438 Aligned: 401 Modelled: 419 Confidence: 100.0% Identity: 13% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 2gfp chain A Region: 24 - 424 Aligned: 369 Modelled: 390 Confidence: 100.0% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 2xut chain C Region: 27 - 432 Aligned: 396 Modelled: 406 Confidence: 99.9% Identity: 10% PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. Phyre2 PDB 3b9y chain A Region: 9 - 254 Aligned: 223 Modelled: 237 Confidence: 32.7% Identity: 14% 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 2g9p chain A Region: 83 - 96 Aligned: 14 Modelled: 14 Confidence: 26.5% Identity: 36% PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom Phyre2 PDB 2inp chain D Region: 84 - 95 Aligned: 12 Modelled: 12 Confidence: 11.5% Identity: 42% PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex Phyre2 PDB 3hd6 chain A Region: 7 - 242 Aligned: 220 Modelled: 232 Confidence: 9.0% Identity: 7% 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 3dh4 chain A Region: 83 - 115 Aligned: 33 Modelled: 33 Confidence: 6.2% 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 1 d1pw4a_ 2 c3o7pA_ 3 d1pv7a_ 4 c2gfpA_ 5 c2xutC_ 6 c3b9yA_ 7 c2g9pA_ 8 c2inpD_ 9 c3hd6A_ 10 c3dh4A_

Detailed template information

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

1 d1pw4a_ 100.0 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 2 c3o7pA_ 100.0 11 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 3 d1pv7a_ 100.0 13 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 4 c2gfpA_ 100.0 12 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 5 c2xutC_ 99.9 10 PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. 6 c3b9yA_ 32.7 14 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 7 c2g9pA_ 26.5 36 PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom 8 c2inpD_ 11.5 42 PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex 9 c3hd6A_ 9.0 7 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 10 c3dh4A_ 6.2 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

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