Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	D	N	P	N	K	K	T	F	W	D	K	V	H	L	D	P	T	M	L	L	I	L	L	A	L	L	V	Y	S	A	L	V	I	W	S	A	S	G	Q	D	I	G	M	M	E	R	K	I	G	Q	I	A	M	G	L	V	I	M
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	V	M	A	Q	I	P	P	R	V	Y	E	G	W	A	P	Y	L	Y	I	I	C	I	I	L	L	V	A	V	D	A	F	G	A	I	S	K	G	A	Q	R	W	L	D	L	G	I	V	R	F	Q	P	S	E	I	A	K	I	A	V
Secondary structure
SS confidence
Disorder																															?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		P	L	M	V	A	R	F	I	N	R	D	V	C	P	P	S	L	K	N	T	G	I	A	L	V	L	I	F	M	P	T	L	L	V	A	A	Q	P	D	L	G	T	S	I	L	V	A	L	S	G	L	F	V	L	F	L	S	G	L	S
Secondary structure
SS confidence
Disorder													?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	R	L	I	G	V	A	V	V	L	V	A	A	F	I	P	I	L	W	F	F	L	M	H	D	Y	Q	R	Q	R	V	M	M	L	L	D	P	E	S	D	P	L	G	A	G	Y	H	I	I	Q	S	K	I	A	I	G	S	G	G	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		R	G	K	G	W	L	H	G	T	Q	S	Q	L	E	F	L	P	E	R	H	T	D	F	I	F	A	V	L	A	E	E	L	G	L	V	G	I	L	I	L	L	A	L	Y	I	L	L	I	M	R	G	L	W	I	A	A	R	A	Q	T
Secondary structure
SS confidence
Disorder										?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		T	F	G	R	V	M	A	G	G	L	M	L	I	L	F	V	Y	V	F	V	N	I	G	M	V	S	G	I	L	P	V	V	G	V	P	L	P	L	V	S	Y	G	G	S	A	L	I	V	L	M	A	G	F	G	I	V	M	S	I	H
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370
Sequence		T	H	R	K	M	L	S	K	S	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 2aze chain A domain 1 Region: 330 - 339 Aligned: 10 Modelled: 10 Confidence: 28.4% Identity: 30% Fold: E2F-DP heterodimerization region Superfamily: E2F-DP heterodimerization region Family: DP dimerization segment Phyre2 PDB 2l2t chain A Region: 337 - 369 Aligned: 33 Modelled: 33 Confidence: 25.4% Identity: 21% PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain Phyre2 PDB 2knc chain B Region: 272 - 299 Aligned: 28 Modelled: 28 Confidence: 23.8% Identity: 29% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 1iwg chain A domain 8 Region: 272 - 369 Aligned: 82 Modelled: 82 Confidence: 12.0% Identity: 9% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2jp3 chain A Region: 3 - 37 Aligned: 35 Modelled: 35 Confidence: 11.7% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles Phyre2 PDB 2jo1 chain A Region: 2 - 37 Aligned: 36 Modelled: 36 Confidence: 11.6% Identity: 19% PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles Phyre2 PDB 2gdw chain A domain 1 Region: 325 - 349 Aligned: 24 Modelled: 25 Confidence: 9.5% Identity: 25% Fold: Acyl carrier protein-like Superfamily: ACP-like Family: Peptidyl carrier domain Phyre2 PDB 2png chain A domain 1 Region: 322 - 349 Aligned: 28 Modelled: 28 Confidence: 9.0% Identity: 21% Fold: Acyl carrier protein-like Superfamily: ACP-like Family: Acyl-carrier protein (ACP) Phyre2 PDB 2rmz chain A Region: 272 - 300 Aligned: 29 Modelled: 29 Confidence: 8.5% Identity: 28% PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: bicelle-embedded integrin beta3 transmembrane segment Phyre2 PDB 1ywu chain A Region: 1 - 17 Aligned: 17 Modelled: 17 Confidence: 6.5% Identity: 18% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pa4608; PDBTitle: solution nmr structure of pseudomonas aeruginosa protein pa4608.2 northeast structural genomics target pat7 Phyre2 PDB 1ywu chain A domain 1 Region: 1 - 17 Aligned: 17 Modelled: 17 Confidence: 6.5% Identity: 18% Fold: Split barrel-like Superfamily: PilZ domain-like Family: PilZ domain Phyre2 PDB 3rko chain K Region: 305 - 369 Aligned: 64 Modelled: 65 Confidence: 5.2% Identity: 19% PDB header:oxidoreductase Chain: K: PDB Molecule:nadh-quinone oxidoreductase subunit k; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 1 d2azea1 2 c2l2tA_ 3 c2kncB_ 4 d1iwga8 5 c2jp3A_ 6 c2jo1A_ 7 d2gdwa1 8 d2pnga1 9 c2rmzA_ 10 c1ywuA_ 11 d1ywua1 12 c3rkoK_

Detailed template information

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

1 d2azea1 28.4 30 Fold:E2F-DP heterodimerization region Superfamily:E2F-DP heterodimerization region Family:DP dimerization segment 2 c2l2tA_ 25.4 21 PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain 3 c2kncB_ 23.8 29 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 4 d1iwga8 12.0 9 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 5 c2jp3A_ 11.7 14 PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles 6 c2jo1A_ 11.6 19 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 7 d2gdwa1 9.5 25 Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Peptidyl carrier domain 8 d2pnga1 9.0 21 Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Acyl-carrier protein (ACP) 9 c2rmzA_ 8.5 28 PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: bicelle-embedded integrin beta3 transmembrane segment 10 c1ywuA_ 6.5 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pa4608; PDBTitle: solution nmr structure of pseudomonas aeruginosa protein pa4608.2 northeast structural genomics target pat7 11 d1ywua1 6.5 18 Fold:Split barrel-like Superfamily:PilZ domain-like Family:PilZ domain 12 c3rkoK_ 5.2 19 PDB header:oxidoreductase Chain: K: PDB Molecule:nadh-quinone oxidoreductase subunit k; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution

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