Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	A	K	Q	T	R	Q	G	V	L	L	A	L	A	A	Y	F	I	W	G	I	A	P	A	Y	F	K	L	I	Y	Y	V	P	A	D	E	I	L	T	H	R	V	I	W	S	F	F	F	M	V	V	L	M	S	I	C	R	Q	W
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																																			?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	Y	L	K	T	L	I	Q	T	P	Q	K	I	F	M	L	A	V	S	A	V	L	I	G	G	N	W	L	L	F	I	W	A	V	N	N	H	H	M	L	E	A	S	L	G	Y	F	I	N	P	L	V	N	I	V	L	G	M	I	F
Secondary structure
SS confidence
Disorder		?	?	?	?																																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	G	E	R	F	R	R	M	Q	W	L	A	V	I	L	A	I	C	G	V	L	V	Q	L	W	T	F	G	S	L	P	I	I	A	L	G	L	A	F	S	F	A	F	Y	G	L	V	R	K	K	I	A	V	E	A	Q	T	G	M	L
Secondary structure
SS confidence
Disorder																															?																					?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	E	T	M	W	L	L	P	V	A	A	I	Y	L	F	A	I	A	D	S	S	T	S	H	M	G	Q	N	P	M	S	L	N	L	L	L	I	A	A	G	I	V	T	T	V	P	L	L	C	F	T	A	A	A	T	R	L	R	L	S
Secondary structure
SS confidence
Disorder																				?	?	?	?	?	?	?	?	?																													?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.
Sequence		T	L	G	F	F	Q	Y	I	G	P	T	L	M	F	L	L	A	V	T	F	Y	G	E	K	P	G	A	D	K	M	V	T	F	A	F	I	W	V	A	L	A	I	F	V	M	D	A	I	Y	T	Q	R	R	T	S	K
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: 218 - 292 Aligned: 75 Modelled: 75 Confidence: 97.8% Identity: 13% Fold: Multidrug resistance efflux transporter EmrE Superfamily: Multidrug resistance efflux transporter EmrE Family: Multidrug resistance efflux transporter EmrE Phyre2 PDB 2i68 chain B Region: 222 - 285 Aligned: 58 Modelled: 64 Confidence: 83.4% Identity: 17% 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 3aqp chain B Region: 209 - 296 Aligned: 87 Modelled: 88 Confidence: 68.6% Identity: 14% 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 1iwg chain A domain 8 Region: 215 - 296 Aligned: 82 Modelled: 82 Confidence: 30.0% Identity: 17% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2jp3 chain A Region: 270 - 296 Aligned: 27 Modelled: 27 Confidence: 15.9% Identity: 7% 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 3rko chain F Region: 3 - 150 Aligned: 142 Modelled: 148 Confidence: 14.8% Identity: 11% 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 3gia chain A Region: 63 - 296 Aligned: 217 Modelled: 234 Confidence: 13.0% Identity: 8% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 183 - 294 Aligned: 112 Modelled: 112 Confidence: 8.0% Identity: 10% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2mlt chain B Region: 271 - 295 Aligned: 25 Modelled: 25 Confidence: 7.1% Identity: 4% PDB header:toxin (hemolytic polypeptide) Chain: B: PDB Molecule:melittin; PDBTitle: melittin Phyre2 PDB 2mlt chain A Region: 271 - 295 Aligned: 25 Modelled: 25 Confidence: 7.1% Identity: 4% PDB header:toxin (hemolytic polypeptide) Chain: A: PDB Molecule:melittin; PDBTitle: melittin Phyre2 PDB 3hd6 chain A Region: 45 - 231 Aligned: 187 Modelled: 187 Confidence: 6.7% Identity: 12% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 2hg5 chain D Region: 269 - 296 Aligned: 28 Modelled: 28 Confidence: 6.0% Identity: 11% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 2knc chain B Region: 263 - 296 Aligned: 34 Modelled: 34 Confidence: 5.1% Identity: 15% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 1 d1s7ba_ 2 c2i68B_ 3 c3aqpB_ 4 d1iwga8 5 c2jp3A_ 6 c3rkoF_ 7 c3giaA_ 8 c3lrcC_ 9 c2mltB_ 10 c2mltA_ 11 c3hd6A_ 12 c2hg5D_ 13 c2kncB_

Detailed template information

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

1 d1s7ba_ 97.8 13 Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE 2 c2i68B_ 83.4 17 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 c3aqpB_ 68.6 14 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 4 d1iwga8 30.0 17 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 5 c2jp3A_ 15.9 7 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 c3rkoF_ 14.8 11 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 7 c3giaA_ 13.0 8 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 8 c3lrcC_ 8.0 10 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 9 c2mltB_ 7.1 4 PDB header:toxin (hemolytic polypeptide) Chain: B: PDB Molecule:melittin; PDBTitle: melittin 10 c2mltA_ 7.1 4 PDB header:toxin (hemolytic polypeptide) Chain: A: PDB Molecule:melittin; PDBTitle: melittin 11 c3hd6A_ 6.7 12 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 12 c2hg5D_ 6.0 11 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 13 c2kncB_ 5.1 15 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; 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