Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	R	K	D	G	V	L	A	L	L	V	V	V	V	W	G	L	N	F	V	V	I	K	V	G	L	H	N	M	P	P	L	M	L	A	G	L	R	F	M	L	V	A	F	P	A	I	F	F	V	A	R	P	K	V	P	L	N	L
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	L	G	Y	G	L	T	I	S	F	A	Q	F	A	F	L	F	C	A	I	N	F	G	M	P	A	G	L	A	S	L	V	L	Q	A	Q	A	F	F	T	I	M	L	G	A	F	T	F	G	E	R	L	H	G	K	Q	L	A	G	I
Secondary structure
SS confidence
Disorder																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	L	A	I	F	G	V	L	V	L	I	E	D	S	L	N	G	Q	H	V	A	M	L	G	F	M	L	T	L	A	A	A	F	S	W	A	C	G	N	I	F	N	K	K	I	M	S	H	S	T	R	P	A	V	M	S	L	V	I	W
Secondary structure
SS confidence
Disorder												?			?	?	?	?	?	?	?																								?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	A	L	I	P	I	I	P	F	F	V	A	S	L	I	L	D	G	S	A	T	M	I	H	S	L	V	T	I	D	M	T	T	I	L	S	L	M	Y	L	A	F	V	A	T	I	V	G	Y	G	I	W	G	T	L	L	G	R	Y	E
Secondary structure
SS confidence
Disorder																					?	?	?	?	?		?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.
Sequence		T	W	R	V	A	P	L	S	L	L	V	P	V	V	G	L	A	S	A	A	L	L	L	D	E	R	L	T	G	L	Q	F	L	G	A	V	L	I	M	T	G	L	Y	I	N	V	F	G	L	R	W	R	K	A	V	K	V	G	S
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 1s7b chain A Region: 220 - 290 Aligned: 71 Modelled: 71 Confidence: 97.7% Identity: 15% Fold: Multidrug resistance efflux transporter EmrE Superfamily: Multidrug resistance efflux transporter EmrE Family: Multidrug resistance efflux transporter EmrE Phyre2 PDB 2i68 chain B Region: 224 - 287 Aligned: 58 Modelled: 64 Confidence: 89.2% Identity: 24% PDB header:transport protein Chain: B: PDB Molecule:protein emre; PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre Phyre2 PDB 1xio chain A Region: 33 - 240 Aligned: 208 Modelled: 208 Confidence: 24.3% Identity: 5% PDB header:signaling protein Chain: A: PDB Molecule:anabaena sensory rhodopsin; PDBTitle: anabaena sensory rhodopsin Phyre2 PDB 1xio chain A Region: 33 - 240 Aligned: 208 Modelled: 208 Confidence: 24.3% Identity: 5% Fold: Family A G protein-coupled receptor-like Superfamily: Family A G protein-coupled receptor-like Family: Bacteriorhodopsin-like Phyre2 PDB 2jp3 chain A Region: 272 - 299 Aligned: 28 Modelled: 28 Confidence: 12.5% Identity: 18% PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles Phyre2 PDB 2rdd chain B Region: 268 - 297 Aligned: 30 Modelled: 30 Confidence: 7.7% Identity: 7% 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 PDB 1w8x chain P Region: 265 - 299 Aligned: 32 Modelled: 32 Confidence: 7.4% Identity: 25% PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 Phyre2 PDB 2jwa chain A Region: 269 - 297 Aligned: 29 Modelled: 29 Confidence: 7.4% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 3aqp chain B Region: 212 - 299 Aligned: 88 Modelled: 88 Confidence: 6.6% Identity: 9% PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus Phyre2 1 d1s7ba_ 2 c2i68B_ 3 c1xioA_ 4 d1xioa_ 5 c2jp3A_ 6 c2rddB_ 7 c1w8xP_ 8 c2jwaA_ 9 c3aqpB_

Detailed template information

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

1 d1s7ba_ 97.7 15 Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE 2 c2i68B_ 89.2 24 PDB header:transport protein Chain: B: PDB Molecule:protein emre; PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre 3 c1xioA_ 24.3 5 PDB header:signaling protein Chain: A: PDB Molecule:anabaena sensory rhodopsin; PDBTitle: anabaena sensory rhodopsin 4 d1xioa_ 24.3 5 Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like 5 c2jp3A_ 12.5 18 PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles 6 c2rddB_ 7.7 7 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. 7 c1w8xP_ 7.4 25 PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 8 c2jwaA_ 7.4 14 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 9 c3aqpB_ 6.6 9 PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus

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