Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	W	L	P	F	I	A	I	F	L	Y	V	Y	I	E	I	S	I	F	I	Q	V	A	H	V	L	G	V	L	L	T	L	V	L	V	I	F	T	S	V	I	G	M	S	L	V	R	N	Q	G	F	K	N	F	V	L	M	Q	Q
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	M	A	A	G	E	N	P	A	A	E	M	I	K	S	V	S	L	I	I	A	G	L	L	L	L	L	P	G	F	F	T	D	F	L	G	L	L	L	L	L	P	P	V	Q	K	H	L	T	V	K	L	M	P	H	L	R	F	S	R
Secondary structure
SS confidence
Disorder					?	?	?	?	?																																																	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.
Sequence		M	P	G	G	G	F	S	A	G	T	G	G	G	N	T	F	D	G	E	Y	Q	R	K	D	D	E	R	D	R	L	D	H	K	D	D	R	Q	D
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 2zt9 chain F Region: 29 - 51 Aligned: 23 Modelled: 23 Confidence: 34.8% Identity: 30% PDB header:photosynthesis Chain: F: PDB Molecule:cytochrome b6-f complex subunit 7; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 Phyre2 PDB 2e74 chain F domain 1 Region: 29 - 51 Aligned: 23 Modelled: 23 Confidence: 34.7% Identity: 30% Fold: Single transmembrane helix Superfamily: PetM subunit of the cytochrome b6f complex Family: PetM subunit of the cytochrome b6f complex Phyre2 PDB 2cpb chain A Region: 25 - 49 Aligned: 25 Modelled: 25 Confidence: 21.4% Identity: 28% PDB header:viral protein Chain: A: PDB Molecule:m13 major coat protein; PDBTitle: solution nmr structures of the major coat protein of2 filamentous bacteriophage m13 solubilized in3 dodecylphosphocholine micelles, 25 lowest energy structures Phyre2 PDB 2axt chain E domain 1 Region: 77 - 96 Aligned: 20 Modelled: 20 Confidence: 20.4% Identity: 40% Fold: Single transmembrane helix Superfamily: Cytochrome b559 subunits Family: Cytochrome b559 subunits Phyre2 PDB 1afo chain B Region: 82 - 111 Aligned: 30 Modelled: 30 Confidence: 9.7% Identity: 23% PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures Phyre2 1 c2zt9F_ 2 d2e74f1 3 c2cpbA_ 4 d2axte1 5 c1afoB_

Detailed template information

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

1 c2zt9F_ 34.8 30 PDB header:photosynthesis Chain: F: PDB Molecule:cytochrome b6-f complex subunit 7; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 2 d2e74f1 34.7 30 Fold:Single transmembrane helix Superfamily:PetM subunit of the cytochrome b6f complex Family:PetM subunit of the cytochrome b6f complex 3 c2cpbA_ 21.4 28 PDB header:viral protein Chain: A: PDB Molecule:m13 major coat protein; PDBTitle: solution nmr structures of the major coat protein of2 filamentous bacteriophage m13 solubilized in3 dodecylphosphocholine micelles, 25 lowest energy structures 4 d2axte1 20.4 40 Fold:Single transmembrane helix Superfamily:Cytochrome b559 subunits Family:Cytochrome b559 subunits 5 c1afoB_ 9.7 23 PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures

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