Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	V	S	T	L	E	S	E	N	A	Q	P	V	A	Q	T	Q	N	S	E	L	I	Y	R	L	E	D	R	P	P	L	P	Q	T	L	F	A	A	C	Q	H	L	L	A	M	F	V	A	V	I	T	P	A	L	L	I	C	Q	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	G	L	P	A	Q	D	T	Q	H	I	I	S	M	S	L	F	A	S	G	V	A	S	I	I	Q	I	K	A	W	G	P	V	G	S	G	L	L	S	I	Q	G	T	S	F	N	F	V	A	P	L	I	M	G	G	T	A	L	K	T
Secondary structure
SS confidence
Disorder		?	?	?	?																										?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	G	A	D	V	P	T	M	M	A	A	L	F	G	T	L	M	L	A	S	C	T	E	M	V	I	S	R	V	L	H	L	A	R	R	I	I	T	P	L	V	S	G	V	V	V	M	I	I	G	L	S	L	I	Q	V	G	L	T	S
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	G	G	G	Y	A	A	M	S	D	N	T	F	G	A	P	K	N	L	L	L	A	G	V	V	L	A	L	I	I	L	L	N	R	Q	R	N	P	Y	L	R	V	A	S	L	V	I	A	M	A	A	G	Y	A	L	A	W	F	M	G
Secondary structure
SS confidence
Disorder									?	?	?																									?	?	?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		M	L	P	E	S	N	E	P	M	T	Q	E	L	I	M	V	P	T	P	L	Y	Y	G	L	G	I	E	W	S	L	L	L	P	L	M	L	V	F	M	I	T	S	L	E	T	I	G	D	I	T	A	T	S	D	V	S	E	Q	P	V
Secondary structure
SS confidence
Disorder					?	?	?	?	?	?	?	?	?	?		?					?	?																																			?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		S	G	P	L	Y	M	K	R	L	K	G	G	V	L	A	N	G	L	N	S	F	V	S	A	V	F	N	T	F	P	N	S	C	F	G	Q	N	N	G	V	I	Q	L	T	G	V	A	S	R	Y	V	G	F	V	V	A	L	M	L	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?																						?		?		?	?	?	?										?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		V	L	G	L	F	P	A	V	S	G	F	V	Q	H	I	P	E	P	V	L	G	G	A	T	L	V	M	F	G	T	I	A	A	S	G	V	R	I	V	S	R	E	P	L	N	R	R	A	I	L	I	I	A	L	S	L	A	V	G	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.
Sequence		G	V	S	Q	Q	P	L	I	L	Q	F	A	P	E	W	L	K	N	L	L	S	S	G	I	A	A	G	G	I	T	A	I	V	L	N	L	I	F	P	P	E	K	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 3qe7 chain A Region: 22 - 459 Aligned: 399 Modelled: 424 Confidence: 100.0% Identity: 25% PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa Phyre2 PDB 1bzk chain A Region: 29 - 62 Aligned: 34 Modelled: 34 Confidence: 43.6% Identity: 24% PDB header:transport protein Chain: A: PDB Molecule:protein (band 3 anion transport protein); PDBTitle: structural studies on the effects of the deletion in the2 red cell anion exchanger (band3, ae1) associated with3 south east asian ovalocytosis. Phyre2 PDB 1pw4 chain A Region: 12 - 463 Aligned: 413 Modelled: 429 Confidence: 37.6% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 1prt chain A Region: 19 - 31 Aligned: 13 Modelled: 13 Confidence: 14.8% Identity: 38% Fold: ADP-ribosylation Superfamily: ADP-ribosylation Family: ADP-ribosylating toxins Phyre2 PDB 1oyi chain A Region: 18 - 31 Aligned: 14 Modelled: 14 Confidence: 14.3% Identity: 43% PDB header:viral protein Chain: A: PDB Molecule:double-stranded rna-binding protein; PDBTitle: solution structure of the z-dna binding domain of the2 vaccinia virus gene e3l Phyre2 PDB 1oyi chain A Region: 18 - 31 Aligned: 14 Modelled: 14 Confidence: 14.3% Identity: 43% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Z-DNA binding domain Phyre2 PDB 3lpz chain A Region: 317 - 330 Aligned: 14 Modelled: 14 Confidence: 12.6% Identity: 14% PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 Phyre2 PDB 3o7p chain A Region: 36 - 462 Aligned: 403 Modelled: 427 Confidence: 6.1% Identity: 10% 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 1xmk chain A domain 1 Region: 18 - 33 Aligned: 16 Modelled: 16 Confidence: 5.6% Identity: 25% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Z-DNA binding domain Phyre2 PDB 2ht2 chain B Region: 284 - 454 Aligned: 171 Modelled: 171 Confidence: 5.4% Identity: 13% PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex Phyre2 PDB 1zt2 chain A domain 1 Region: 2 - 27 Aligned: 26 Modelled: 26 Confidence: 5.2% Identity: 15% Fold: Prim-pol domain Superfamily: Prim-pol domain Family: PriA-like Phyre2 1 c3qe7A_ 2 c1bzkA_ 3 d1pw4a_ 4 d1prta_ 5 c1oyiA_ 6 d1oyia_ 7 c3lpzA_ 8 c3o7pA_ 9 d1xmka1 10 c2ht2B_ 11 d1zt2a1

Detailed template information

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

1 c3qe7A_ 100.0 25 PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa 2 c1bzkA_ 43.6 24 PDB header:transport protein Chain: A: PDB Molecule:protein (band 3 anion transport protein); PDBTitle: structural studies on the effects of the deletion in the2 red cell anion exchanger (band3, ae1) associated with3 south east asian ovalocytosis. 3 d1pw4a_ 37.6 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 4 d1prta_ 14.8 38 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:ADP-ribosylating toxins 5 c1oyiA_ 14.3 43 PDB header:viral protein Chain: A: PDB Molecule:double-stranded rna-binding protein; PDBTitle: solution structure of the z-dna binding domain of the2 vaccinia virus gene e3l 6 d1oyia_ 14.3 43 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 7 c3lpzA_ 12.6 14 PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 8 c3o7pA_ 6.1 10 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 9 d1xmka1 5.6 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 10 c2ht2B_ 5.4 13 PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex 11 d1zt2a1 5.2 15 Fold:Prim-pol domain Superfamily:Prim-pol domain Family:PriA-like

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