Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	R	F	P	R	S	D	S	I	V	Q	P	R	A	G	L	Q	T	Y	M	A	Q	V	Y	G	W	M	T	V	G	L	L	L	T	A	F	V	A	W	Y	A	A	N	S	A	A	V	M	E	L	L	F	T	N	R	V	F	L	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	L	I	I	A	Q	L	A	L	V	I	V	L	S	A	M	I	Q	K	L	S	A	G	V	T	T	M	L	F	M	L	Y	S	A	L	T	G	L	T	L	S	S	I	F	I	V	Y	T	A	A	S	I	A	S	T	F	V	V	T	A
Secondary structure
SS confidence
Disorder																?	?	?	?	?	?	?																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	M	F	G	A	M	S	L	Y	G	Y	T	T	K	R	D	L	S	G	F	G	N	M	L	F	M	A	L	I	G	I	V	L	A	S	L	V	N	F	W	L	K	S	E	A	L	M	W	A	V	T	Y	I	G	V	I	V	F	V	G
Secondary structure
SS confidence
Disorder																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.
Sequence		L	T	A	Y	D	T	Q	K	L	K	N	M	G	E	Q	I	D	T	R	D	T	S	N	L	R	K	Y	S	I	L	G	A	L	T	L	Y	L	D	F	I	N	L	F	L	M	L	L	R	I	F	G	N	R	R
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 2r6g chain F domain 1 Region: 121 - 211 Aligned: 91 Modelled: 91 Confidence: 13.6% Identity: 11% Fold: MalF N-terminal region-like Superfamily: MalF N-terminal region-like Family: MalF N-terminal region-like Phyre2 PDB 2k9p chain A Region: 60 - 109 Aligned: 50 Modelled: 50 Confidence: 6.7% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:pheromone alpha factor receptor; PDBTitle: structure of tm1_tm2 in lppg micelles Phyre2 PDB 3k07 chain A Region: 12 - 157 Aligned: 136 Modelled: 146 Confidence: 6.3% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa Phyre2 PDB 2h3o chain A Region: 121 - 136 Aligned: 16 Modelled: 16 Confidence: 5.4% Identity: 25% PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices Phyre2 1 d2r6gf1 2 c2k9pA_ 3 c3k07A_ 4 c2h3oA_

Detailed template information

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

1 d2r6gf1 13.6 11 Fold:MalF N-terminal region-like Superfamily:MalF N-terminal region-like Family:MalF N-terminal region-like 2 c2k9pA_ 6.7 14 PDB header:membrane protein Chain: A: PDB Molecule:pheromone alpha factor receptor; PDBTitle: structure of tm1_tm2 in lppg micelles 3 c3k07A_ 6.3 9 PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa 4 c2h3oA_ 5.4 25 PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices

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