Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	L	F	P	V	I	V	V	F	G	L	S	F	P	P	I	F	F	E	L	L	L	S	L	A	I	F	W	L	V	R	R	V	L	V	P	T	G	I	Y	D	F	V	W	H	P	A	L	F	N	T	A	L	Y	C	C	L	F	Y
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		L	I	S	R	L	F	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 1w5c chain L Region: 7 - 25 Aligned: 19 Modelled: 19 Confidence: 22.2% Identity: 32% PDB header:photosynthesis Chain: L: PDB Molecule:cytochrome b559 beta subunit; PDBTitle: photosystem ii from thermosynechococcus elongatus Phyre2 PDB 2axt chain F domain 1 Region: 7 - 25 Aligned: 19 Modelled: 19 Confidence: 21.5% Identity: 32% Fold: Single transmembrane helix Superfamily: Cytochrome b559 subunits Family: Cytochrome b559 subunits Phyre2 PDB 1c8s chain A Region: 38 - 64 Aligned: 27 Modelled: 27 Confidence: 9.4% Identity: 19% Fold: Family A G protein-coupled receptor-like Superfamily: Family A G protein-coupled receptor-like Family: Bacteriorhodopsin-like Phyre2 PDB 1v54 chain E Region: 29 - 57 Aligned: 29 Modelled: 29 Confidence: 8.5% Identity: 31% Fold: alpha-alpha superhelix Superfamily: Cytochrome c oxidase subunit E Family: Cytochrome c oxidase subunit E Phyre2 PDB 2y69 chain R Region: 29 - 57 Aligned: 29 Modelled: 29 Confidence: 8.4% Identity: 31% PDB header:electron transport Chain: R: PDB Molecule:cytochrome c oxidase subunit 5a; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 PDB 2k6t chain A Region: 51 - 58 Aligned: 8 Modelled: 8 Confidence: 7.3% Identity: 75% PDB header:hormone Chain: A: PDB Molecule:insulin-like 3 a chain; PDBTitle: solution structure of the relaxin-like factor Phyre2 PDB 2h8b chain A Region: 51 - 58 Aligned: 8 Modelled: 8 Confidence: 7.3% Identity: 75% PDB header:hormone/growth factor Chain: A: PDB Molecule:insulin-like 3; PDBTitle: solution structure of insl3 Phyre2 PDB 2k6u chain A Region: 51 - 58 Aligned: 8 Modelled: 8 Confidence: 7.2% Identity: 75% PDB header:hormone Chain: A: PDB Molecule:insulin-like 3 a chain; PDBTitle: the solution structure of a conformationally restricted2 fully active derivative of the human relaxin-like factor3 (rlf) Phyre2 PDB 1m0k chain A Region: 38 - 64 Aligned: 27 Modelled: 27 Confidence: 6.6% Identity: 19% PDB header:ion transport Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: bacteriorhodopsin k intermediate at 1.43 a resolution Phyre2 1 c1w5cL_ 2 d2axtf1 3 d1c8sa_ 4 d1v54e_ 5 c2y69R_ 6 c2k6tA_ 7 c2h8bA_ 8 c2k6uA_ 9 c1m0kA_

Detailed template information

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

1 c1w5cL_ 22.2 32 PDB header:photosynthesis Chain: L: PDB Molecule:cytochrome b559 beta subunit; PDBTitle: photosystem ii from thermosynechococcus elongatus 2 d2axtf1 21.5 32 Fold:Single transmembrane helix Superfamily:Cytochrome b559 subunits Family:Cytochrome b559 subunits 3 d1c8sa_ 9.4 19 Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like 4 d1v54e_ 8.5 31 Fold:alpha-alpha superhelix Superfamily:Cytochrome c oxidase subunit E Family:Cytochrome c oxidase subunit E 5 c2y69R_ 8.4 31 PDB header:electron transport Chain: R: PDB Molecule:cytochrome c oxidase subunit 5a; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 6 c2k6tA_ 7.3 75 PDB header:hormone Chain: A: PDB Molecule:insulin-like 3 a chain; PDBTitle: solution structure of the relaxin-like factor 7 c2h8bA_ 7.3 75 PDB header:hormone/growth factor Chain: A: PDB Molecule:insulin-like 3; PDBTitle: solution structure of insl3 8 c2k6uA_ 7.2 75 PDB header:hormone Chain: A: PDB Molecule:insulin-like 3 a chain; PDBTitle: the solution structure of a conformationally restricted2 fully active derivative of the human relaxin-like factor3 (rlf) 9 c1m0kA_ 6.6 19 PDB header:ion transport Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: bacteriorhodopsin k intermediate at 1.43 a 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