Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	C	S	T	S	L	S	G	K	N	R	I	V	L	I	A	G	I	L	M	I	A	T	T	L	R	V	T	F	T	G	A	A	P	L	L	D	T	I	R	S	A	Y	S	L	T	T	A	Q	T	G	L	L	T	T	L	P	L	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	F	A	L	I	S	P	L	A	A	P	V	A	R	R	F	G	M	E	R	S	L	F	A	A	L	L	L	I	C	A	G	I	A	I	R	S	L	P	S	P	Y	L	L	F	G	G	T	A	V	I	G	G	G	I	A	L	G	N	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	L	P	G	L	I	K	R	D	F	P	H	S	V	A	R	L	T	G	A	Y	S	L	T	M	G	A	A	A	A	L	G	S	A	M	V	V	P	L	A	L	N	G	F	G	W	Q	G	A	L	L	M	L	M	C	F	P	L	L	A
Secondary structure
SS confidence
Disorder																																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	F	L	W	L	P	Q	W	R	S	Q	Q	H	A	N	L	S	T	S	R	A	L	H	T	R	G	I	W	R	S	P	L	A	W	Q	V	T	L	F	L	G	I	N	S	L	V	Y	Y	V	I	I	G	W	L	P	A	I	L	I	S
Secondary structure
SS confidence
Disorder											?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		H	G	Y	S	E	A	Q	A	G	S	L	H	G	L	L	Q	L	A	T	A	A	P	G	L	L	I	P	L	F	L	H	H	V	K	D	Q	R	G	I	A	A	F	V	A	L	M	C	A	V	G	A	V	G	L	C	F	M	P	A	H
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	I	T	W	T	L	L	F	G	F	G	S	G	A	T	M	I	L	G	L	T	F	I	G	L	R	A	S	S	A	H	Q	A	A	A	L	S	G	M	A	Q	S	V	G	Y	L	L	A	A	C	G	P	P	L	M	G	K	I	H	D
Secondary structure
SS confidence
Disorder																											?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.
Sequence		A	N	G	N	W	S	V	P	L	M	G	V	A	I	L	S	L	L	M	A	I	F	G	L	C	A	G	R	D	K	E	I	R
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: 9 - 393 Aligned: 383 Modelled: 385 Confidence: 100.0% Identity: 14% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 1pv7 chain A Region: 7 - 391 Aligned: 380 Modelled: 385 Confidence: 100.0% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 3o7p chain A Region: 10 - 389 Aligned: 373 Modelled: 377 Confidence: 100.0% Identity: 13% 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 2gfp chain A Region: 15 - 378 Aligned: 364 Modelled: 364 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: 19 - 386 Aligned: 368 Modelled: 368 Confidence: 99.9% Identity: 12% 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 3pro chain C domain 1 Region: 36 - 77 Aligned: 42 Modelled: 42 Confidence: 21.2% Identity: 12% Fold: Alpha-lytic protease prodomain-like Superfamily: Alpha-lytic protease prodomain Family: Alpha-lytic protease prodomain Phyre2 PDB 2g9p chain A Region: 68 - 81 Aligned: 14 Modelled: 14 Confidence: 20.3% Identity: 21% 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: 47 - 208 Aligned: 162 Modelled: 162 Confidence: 9.9% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 4pro chain D Region: 34 - 77 Aligned: 44 Modelled: 44 Confidence: 7.6% Identity: 11% PDB header:serine protease Chain: D: PDB Molecule:alpha-lytic protease; PDBTitle: alpha-lytic protease complexed with pro region Phyre2 PDB 2rdd chain B Region: 368 - 393 Aligned: 26 Modelled: 26 Confidence: 7.0% Identity: 23% 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 PDB 3qnq chain D Region: 153 - 206 Aligned: 54 Modelled: 54 Confidence: 6.6% Identity: 11% 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 2b2h chain A Region: 46 - 198 Aligned: 153 Modelled: 153 Confidence: 6.2% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) Phyre2 PDB 3hd6 chain A Region: 48 - 212 Aligned: 165 Modelled: 165 Confidence: 6.0% Identity: 13% 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 2hoe chain A domain 1 Region: 39 - 59 Aligned: 21 Modelled: 21 Confidence: 5.5% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: ROK associated domain Phyre2 PDB 2k9y chain A Region: 370 - 391 Aligned: 22 Modelled: 22 Confidence: 5.4% Identity: 23% 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 2k9y chain B Region: 370 - 391 Aligned: 22 Modelled: 22 Confidence: 5.4% Identity: 23% 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 1 d1pw4a_ 2 d1pv7a_ 3 c3o7pA_ 4 c2gfpA_ 5 c2xutC_ 6 d3proc1 7 c2g9pA_ 8 c2xq2A_ 9 c4proD_ 10 c2rddB_ 11 c3qnqD_ 12 c2b2hA_ 13 c3hd6A_ 14 d2hoea1 15 c2k9yA_ 16 c2k9yB_

Detailed template information

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

1 d1pw4a_ 100.0 14 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 2 d1pv7a_ 100.0 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 3 c3o7pA_ 100.0 13 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 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 12 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 d3proc1 21.2 12 Fold:Alpha-lytic protease prodomain-like Superfamily:Alpha-lytic protease prodomain Family:Alpha-lytic protease prodomain 7 c2g9pA_ 20.3 21 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 c2xq2A_ 9.9 9 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 9 c4proD_ 7.6 11 PDB header:serine protease Chain: D: PDB Molecule:alpha-lytic protease; PDBTitle: alpha-lytic protease complexed with pro region 10 c2rddB_ 7.0 23 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. 11 c3qnqD_ 6.6 11 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 12 c2b2hA_ 6.2 10 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) 13 c3hd6A_ 6.0 13 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 14 d2hoea1 5.5 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ROK associated domain 15 c2k9yA_ 5.4 23 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 16 c2k9yB_ 5.4 23 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0

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