Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	R	F	F	T	R	H	A	A	T	L	F	F	P	M	A	L	I	L	Y	D	F	A	A	Y	L	S	T	D	L	I	Q	P	G	I	I	N	V	V	R	D	F	N	A	D	V	S	L	A	P	A	A	V	S	L	Y	L	A	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	M	A	L	Q	W	L	L	G	P	L	S	D	R	I	G	R	R	P	V	L	I	T	G	A	L	I	F	T	L	A	C	A	A	T	M	F	T	T	S	M	T	Q	F	L	I	A	R	A	I	Q	G	T	S	I	C	F	I	A	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	G	Y	V	T	V	Q	E	A	F	G	Q	T	K	G	I	K	L	M	A	I	I	T	S	I	V	L	I	A	P	I	I	G	P	L	S	G	A	A	L	M	H	F	M	H	W	K	V	L	F	A	I	I	A	V	M	G	F	I	S
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	V	G	L	L	L	A	M	P	E	T	V	K	R	G	A	V	P	F	S	A	K	S	V	L	R	D	F	R	N	V	F	C	N	R	L	F	L	F	G	A	A	T	I	S	L	S	Y	I	P	M	M	S	W	V	A	V	S	P	V
Secondary structure
SS confidence
Disorder														?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	L	I	D	A	G	S	L	T	T	S	Q	F	A	W	T	Q	V	P	V	F	G	A	V	I	V	A	N	A	I	V	A	R	F	V	K	D	P	T	E	P	R	F	I	W	R	A	V	P	I	Q	L	V	G	L	S	L	L	I	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	N	L	L	S	P	H	V	W	L	W	S	V	L	G	T	S	L	Y	A	F	G	I	G	L	I	F	P	T	L	F	R	F	T	L	F	S	N	K	L	P	K	G	T	V	S	A	S	L	N	M	V	I	L	M	V	M	S	V	S
Secondary structure
SS confidence
Disorder																																						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410
Sequence		V	E	I	G	R	W	L	W	F	N	G	G	R	L	P	F	H	L	L	A	V	V	A	G	V	I	V	V	F	T	L	A	G	L	L	N	R	V	R	Q	H	Q	A	A	E	L	V	E	E	Q
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: 2 - 408 Aligned: 406 Modelled: 407 Confidence: 100.0% Identity: 13% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 2gfp chain A Region: 15 - 388 Aligned: 369 Modelled: 374 Confidence: 100.0% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 3o7p chain A Region: 16 - 397 Aligned: 375 Modelled: 382 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: 16 - 410 Aligned: 395 Modelled: 395 Confidence: 100.0% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 2xut chain C Region: 15 - 394 Aligned: 380 Modelled: 380 Confidence: 100.0% Identity: 14% 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 3qnq chain D Region: 361 - 410 Aligned: 50 Modelled: 50 Confidence: 47.7% 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: 374 - 410 Aligned: 37 Modelled: 37 Confidence: 28.8% Identity: 19% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2g9p chain A Region: 67 - 80 Aligned: 14 Modelled: 14 Confidence: 20.3% 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 2xq2 chain A Region: 276 - 410 Aligned: 129 Modelled: 135 Confidence: 14.9% Identity: 8% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 2jln chain A Region: 355 - 410 Aligned: 56 Modelled: 56 Confidence: 10.2% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 2rdd chain B Region: 380 - 408 Aligned: 29 Modelled: 29 Confidence: 7.4% 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 1 d1pw4a_ 2 c2gfpA_ 3 c3o7pA_ 4 d1pv7a_ 5 c2xutC_ 6 c3qnqD_ 7 c2kncA_ 8 c2g9pA_ 9 c2xq2A_ 10 c2jlnA_ 11 c2rddB_

Detailed template information

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

1 d1pw4a_ 100.0 13 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 2 c2gfpA_ 100.0 18 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 3 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) 4 d1pv7a_ 100.0 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 5 c2xutC_ 100.0 14 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 c3qnqD_ 47.7 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 7 c2kncA_ 28.8 19 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 8 c2g9pA_ 20.3 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 9 c2xq2A_ 14.9 8 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 10 c2jlnA_ 10.2 14 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 11 c2rddB_ 7.4 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.

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