Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	S	Y	R	S	Q	G	R	W	V	I	W	L	S	F	L	I	A	L	L	L	Q	I	M	P	W	P	D	N	L	I	V	F	R	P	N	W	V	L	L	I	L	L	Y	W	I	L	A	L	P	H	R	V	N	V	G	T	G	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	M	G	A	I	L	D	L	I	S	G	S	T	L	G	V	R	V	L	A	M	S	I	I	A	Y	L	V	A	L	K	Y	Q	L	F	R	N	L	A	L	W	Q	Q	A	L	V	V	M	L	L	S	L	V	V	D	I	I	V	F	W
Secondary structure
SS confidence
Disorder												?			?	?																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.
Sequence		A	E	F	L	V	I	N	V	S	F	R	P	E	V	F	W	S	S	V	V	N	G	V	L	W	P	W	I	F	L	L	M	R	K	V	R	Q	Q	F	A	V	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 3p5n chain A Region: 4 - 158 Aligned: 154 Modelled: 155 Confidence: 95.4% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter Phyre2 PDB 3rlb chain A Region: 7 - 159 Aligned: 152 Modelled: 153 Confidence: 84.1% Identity: 14% PDB header:thiamine-binding protein Chain: A: PDB Molecule:thit; PDBTitle: crystal structure at 2.0 a of the s-component for thiamin from an ecf-2 type abc transporter Phyre2 PDB 2ksd chain A Region: 105 - 155 Aligned: 51 Modelled: 51 Confidence: 15.3% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:aerobic respiration control sensor protein arcb; PDBTitle: backbone structure of the membrane domain of e. coli2 histidine kinase receptor arcb, center for structures of3 membrane proteins (csmp) target 4310c Phyre2 PDB 2yvx chain D Region: 54 - 161 Aligned: 108 Modelled: 108 Confidence: 6.2% Identity: 18% PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte Phyre2 PDB 2rdd chain B Region: 29 - 53 Aligned: 25 Modelled: 25 Confidence: 5.5% Identity: 12% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 1 c3p5nA_ 2 c3rlbA_ 3 c2ksdA_ 4 c2yvxD_ 5 c2rddB_

Detailed template information

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

1 c3p5nA_ 95.4 11 PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter 2 c3rlbA_ 84.1 14 PDB header:thiamine-binding protein Chain: A: PDB Molecule:thit; PDBTitle: crystal structure at 2.0 a of the s-component for thiamin from an ecf-2 type abc transporter 3 c2ksdA_ 15.3 14 PDB header:transferase Chain: A: PDB Molecule:aerobic respiration control sensor protein arcb; PDBTitle: backbone structure of the membrane domain of e. coli2 histidine kinase receptor arcb, center for structures of3 membrane proteins (csmp) target 4310c 4 c2yvxD_ 6.2 18 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 5 c2rddB_ 5.5 12 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.

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