Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	Q	I	F	M	V	I	F	L	V	L	S	G	F	I	V	G	N	V	W	S	D	R	G	W	Q	K	K	W	A	E	R	D	A	A	A	L	S	Q	E	V	N	A	Q	F	A	A	R	I	I	E	Q	G	R	T	I	A	R	D
Secondary structure
SS confidence
Disorder		?	?																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	A	V	K	D	A	Q	Q	K	S	A	E	I	S	A	R	A	A	Y	L	S	D	S	V	N	Q	L	R	A	E	A	K	K	Y	A	I	R	L	D	A	A	K	H	T	A	D	L	A	A	A	V	R	G	K	T	T	K	T	A	E
Secondary structure
SS confidence
Disorder																																							?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.
Sequence		G	M	L	T	N	M	L	G	D	I	A	A	E	A	Q	L	Y	A	E	I	A	D	E	R	Y	I	A	G	V	T	C	Q	Q	I	Y	E	S	L	R	D	K	K	H	Q	M
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 2kpe chain B Region: 3 - 16 Aligned: 14 Modelled: 14 Confidence: 10.4% Identity: 43% PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles Phyre2 PDB 2kpe chain A Region: 3 - 16 Aligned: 14 Modelled: 14 Confidence: 10.4% Identity: 43% PDB header:membrane protein Chain: A: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles Phyre2 PDB 2ay0 chain A domain 1 Region: 85 - 103 Aligned: 19 Modelled: 19 Confidence: 7.9% Identity: 32% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: PutA pre-N-terminal region-like Phyre2 PDB 3gmb chain B Region: 103 - 154 Aligned: 52 Modelled: 52 Confidence: 6.0% Identity: 13% PDB header:oxidoreductase Chain: B: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic2 acid oxygenase Phyre2 1 c2kpeB_ 2 c2kpeA_ 3 d2ay0a1 4 c3gmbB_

Detailed template information

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

1 c2kpeB_ 10.4 43 PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 2 c2kpeA_ 10.4 43 PDB header:membrane protein Chain: A: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 3 d2ay0a1 7.9 32 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:PutA pre-N-terminal region-like 4 c3gmbB_ 6.0 13 PDB header:oxidoreductase Chain: B: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic2 acid oxygenase

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