Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	L	L	I	I	T	T	I	L	W	A	F	S	F	S	F	Y	G	E	Y	L	A	G	H	V	D	S	Y	F	A	V	L	V	R	V	G	L	A	A	L	V	F	L	P	F	L	R	T	R	G	N	S	L	K	T	V	G	L	Y
Secondary structure
SS confidence
Disorder		?																																																	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	L	V	G	A	M	Q	L	G	V	M	Y	M	L	S	F	R	A	Y	L	Y	L	T	V	S	E	L	L	L	F	T	V	L	T	P	L	Y	I	T	L	I	Y	D	I	M	S	K	R	R	L	R	W	G	Y	A	F	S	A	L	L
Secondary structure
SS confidence
Disorder																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	V	I	G	A	G	I	I	R	Y	D	Q	V	T	D	H	F	W	T	G	L	L	L	V	Q	L	S	N	I	T	F	A	I	G	M	V	G	Y	K	R	L	M	E	T	R	P	M	P	Q	H	N	A	F	A	W	F	Y	L	G	A
Secondary structure
SS confidence
Disorder														?	?	?																										?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	L	V	A	V	I	A	W	F	L	L	G	N	A	Q	K	M	P	Q	T	T	L	Q	W	G	I	L	V	F	L	G	V	V	A	S	G	I	G	Y	F	M	W	N	Y	G	A	T	Q	V	D	A	G	T	L	G	I	M	N	N	M
Secondary structure
SS confidence
Disorder											?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.
Sequence		H	V	P	A	G	L	L	V	N	L	A	I	W	H	Q	Q	P	H	W	P	T	F	I	T	G	A	L	V	I	L	A	S	L	W	V	H	R	K	W	V	A	P	R	S	S	Q	T	A	D	D	R	R	R	D	C	A	L	S	E
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: 210 - 276 Aligned: 67 Modelled: 67 Confidence: 97.3% Identity: 10% Fold: Multidrug resistance efflux transporter EmrE Superfamily: Multidrug resistance efflux transporter EmrE Family: Multidrug resistance efflux transporter EmrE Phyre2 PDB 2i68 chain B Region: 214 - 276 Aligned: 57 Modelled: 63 Confidence: 42.8% Identity: 16% 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 1ifp chain A Region: 263 - 281 Aligned: 19 Modelled: 0 Confidence: 31.8% Identity: 32% PDB header:virus Chain: A: PDB Molecule:major coat protein assembly; PDBTitle: inovirus (filamentous bacteriophage) strain pf3 major coat2 protein assembly Phyre2 PDB 2jx4 chain A Region: 282 - 297 Aligned: 16 Modelled: 16 Confidence: 9.2% Identity: 38% PDB header:membrane protein Chain: A: PDB Molecule:vasopressin v2 receptor; PDBTitle: nmr structure of the intracellular loop (i3) of the2 vasopressin v2 receptor (gpcr) Phyre2 PDB 3aqp chain B Region: 208 - 273 Aligned: 66 Modelled: 66 Confidence: 8.8% Identity: 12% 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 PDB 1pw4 chain A Region: 114 - 290 Aligned: 177 Modelled: 177 Confidence: 8.5% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 1u7g chain A Region: 37 - 234 Aligned: 194 Modelled: 198 Confidence: 8.0% Identity: 12% Fold: Ammonium transporter Superfamily: Ammonium transporter Family: Ammonium transporter Phyre2 PDB 1iwg chain A domain 7 Region: 207 - 293 Aligned: 87 Modelled: 87 Confidence: 7.6% Identity: 14% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 3rko chain F Region: 118 - 284 Aligned: 163 Modelled: 167 Confidence: 7.2% Identity: 10% PDB header:oxidoreductase Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 PDB 2knc chain A Region: 261 - 294 Aligned: 34 Modelled: 34 Confidence: 5.8% Identity: 18% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 1 d1s7ba_ 2 c2i68B_ 3 c1ifpA_ 4 c2jx4A_ 5 c3aqpB_ 6 d1pw4a_ 7 d1u7ga_ 8 d1iwga7 9 c3rkoF_ 10 c2kncA_

Detailed template information

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

1 d1s7ba_ 97.3 10 Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE 2 c2i68B_ 42.8 16 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 c1ifpA_ 31.8 32 PDB header:virus Chain: A: PDB Molecule:major coat protein assembly; PDBTitle: inovirus (filamentous bacteriophage) strain pf3 major coat2 protein assembly 4 c2jx4A_ 9.2 38 PDB header:membrane protein Chain: A: PDB Molecule:vasopressin v2 receptor; PDBTitle: nmr structure of the intracellular loop (i3) of the2 vasopressin v2 receptor (gpcr) 5 c3aqpB_ 8.8 12 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 6 d1pw4a_ 8.5 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 7 d1u7ga_ 8.0 12 Fold:Ammonium transporter Superfamily:Ammonium transporter Family:Ammonium transporter 8 d1iwga7 7.6 14 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 9 c3rkoF_ 7.2 10 PDB header:oxidoreductase Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution 10 c2kncA_ 5.8 18 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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