Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	S	T	R	K	G	M	L	N	V	L	I	A	A	V	L	W	G	S	S	G	V	C	A	Q	Y	I	M	E	Q	S	Q	M	S	S	Q	F	L	T	M	T	R	L	I	F	A	G	L	I	L	L	T	L	S	F	V	H	G	D
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	I	F	S	I	I	N	N	H	K	D	A	I	S	L	L	I	F	S	V	V	G	A	L	T	V	Q	L	T	F	L	L	T	I	E	K	S	N	A	A	T	A	T	V	L	Q	F	L	S	P	T	I	I	V	A	W	F	S	L	V
Secondary structure
SS confidence
Disorder		?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	K	S	R	P	G	I	L	V	F	C	A	I	L	T	S	L	V	G	T	F	L	L	V	T	H	G	N	P	T	S	L	S	I	S	P	A	A	L	F	W	G	I	A	S	A	F	A	A	A	F	Y	T	T	Y	P	S	T	L	I
Secondary structure
SS confidence
Disorder																														?	?	?	?	?	?																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	R	Y	G	T	L	P	V	V	G	W	S	M	L	I	G	G	L	I	L	L	P	F	Y	A	R	Q	G	T	N	F	V	V	N	G	S	L	I	L	A	F	F	Y	L	V	V	I	G	T	S	L	T	F	S	L	Y	L	K	G	A
Secondary structure
SS confidence
Disorder		?																											?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		Q	L	I	G	G	P	K	A	S	I	L	S	C	A	E	P	L	S	S	A	L	L	S	L	L	L	L	G	I	T	F	T	L	P	D	W	L	G	T	L	L	I	L	S	S	V	I	L	I	S	M	D	S	R	R	R	A	R	K	I
Secondary structure
SS confidence
Disorder			?	?		?																																													?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		N	R	P	A	R	H	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: 224 - 297 Aligned: 74 Modelled: 74 Confidence: 97.7% Identity: 27% Fold: Multidrug resistance efflux transporter EmrE Superfamily: Multidrug resistance efflux transporter EmrE Family: Multidrug resistance efflux transporter EmrE Phyre2 PDB 2i68 chain B Region: 228 - 291 Aligned: 58 Modelled: 64 Confidence: 84.2% Identity: 22% 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 2xq2 chain A Region: 158 - 307 Aligned: 148 Modelled: 150 Confidence: 75.8% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 3b9y chain A Region: 12 - 236 Aligned: 224 Modelled: 225 Confidence: 46.7% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 3aqp chain B Region: 215 - 306 Aligned: 92 Modelled: 92 Confidence: 42.8% Identity: 21% 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 3rko chain F Region: 130 - 300 Aligned: 161 Modelled: 171 Confidence: 36.8% Identity: 12% 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 1iwg chain A domain 8 Region: 221 - 307 Aligned: 87 Modelled: 87 Confidence: 35.3% 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 3dh4 chain A Region: 158 - 307 Aligned: 148 Modelled: 150 Confidence: 26.2% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus Phyre2 PDB 3lrc chain C Region: 177 - 300 Aligned: 124 Modelled: 124 Confidence: 25.6% Identity: 10% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2jo1 chain A Region: 276 - 307 Aligned: 32 Modelled: 32 Confidence: 25.4% Identity: 9% PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles Phyre2 PDB 1iwg chain A domain 7 Region: 207 - 307 Aligned: 101 Modelled: 101 Confidence: 23.2% Identity: 11% 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: 276 - 307 Aligned: 32 Modelled: 32 Confidence: 22.8% Identity: 16% 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 2knc chain A Region: 273 - 307 Aligned: 35 Modelled: 35 Confidence: 15.6% Identity: 26% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3dtu chain B domain 2 Region: 276 - 307 Aligned: 32 Modelled: 32 Confidence: 15.0% Identity: 9% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 1fft chain B domain 2 Region: 281 - 307 Aligned: 27 Modelled: 27 Confidence: 12.9% Identity: 7% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 3m7b chain A Region: 122 - 306 Aligned: 185 Modelled: 185 Confidence: 12.1% Identity: 18% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha Phyre2 PDB 1pw4 chain A Region: 3 - 306 Aligned: 303 Modelled: 304 Confidence: 11.7% Identity: 10% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 1wpg chain A domain 4 Region: 2 - 183 Aligned: 182 Modelled: 182 Confidence: 10.4% Identity: 11% Fold: Calcium ATPase, transmembrane domain M Superfamily: Calcium ATPase, transmembrane domain M Family: Calcium ATPase, transmembrane domain M Phyre2 PDB 2oar chain A domain 1 Region: 273 - 307 Aligned: 35 Modelled: 35 Confidence: 9.7% Identity: 6% Fold: Gated mechanosensitive channel Superfamily: Gated mechanosensitive channel Family: Gated mechanosensitive channel Phyre2 PDB 2hg5 chain D Region: 275 - 307 Aligned: 33 Modelled: 33 Confidence: 9.5% Identity: 3% 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 1 d1s7ba_ 2 c2i68B_ 3 c2xq2A_ 4 c3b9yA_ 5 c3aqpB_ 6 c3rkoF_ 7 d1iwga8 8 c3dh4A_ 9 c3lrcC_ 10 c2jo1A_ 11 d1iwga7 12 c2jp3A_ 13 c2kncA_ 14 d3dtub2 15 d1fftb2 16 c3m7bA_ 17 d1pw4a_ 18 d1wpga4 19 d2oara1 20 c2hg5D_ 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 d1s7ba_ 97.7 27 Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE 2 c2i68B_ 84.2 22 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 c2xq2A_ 75.8 13 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 4 c3b9yA_ 46.7 12 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 5 c3aqpB_ 42.8 21 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 c3rkoF_ 36.8 12 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 d1iwga8 35.3 14 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 8 c3dh4A_ 26.2 12 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 9 c3lrcC_ 25.6 10 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 10 c2jo1A_ 25.4 9 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 11 d1iwga7 23.2 11 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 12 c2jp3A_ 22.8 16 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 13 c2kncA_ 15.6 26 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 14 d3dtub2 15.0 9 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 15 d1fftb2 12.9 7 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 16 c3m7bA_ 12.1 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha 17 d1pw4a_ 11.7 10 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 18 d1wpga4 10.4 11 Fold:Calcium ATPase, transmembrane domain M Superfamily:Calcium ATPase, transmembrane domain M Family:Calcium ATPase, transmembrane domain M 19 d2oara1 9.7 6 Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel 20 c2hg5D_ 9.5 3 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 21 c2akhZ_ not modelled 8.7 16 PDB header:protein transport Chain: Z: PDB Molecule:preprotein translocase sece subunit; PDBTitle: normal mode-based flexible fitted coordinates of a non-2 translocating secyeg protein-conducting channel into the3 cryo-em map of a secyeg-nascent chain-70s ribosome complex4 from e. coli 22 d3ehbb2 not modelled 8.5 9 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 23 c1wazA_ not modelled 8.2 26 PDB header:transport protein Chain: A: PDB Molecule:merf; PDBTitle: nmr structure determination of the bacterial mercury2 transporter, merf, in micelles 24 c2w8aC_ not modelled 8.0 12 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 25 c2jwaA_ not modelled 7.2 23 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 26 c2oarA_ not modelled 6.9 6 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) 27 c2k21A_ not modelled 6.4 17 PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c 28 c2rddB_ not modelled 6.3 6 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. 29 c2b2hA_ not modelled 5.4 12 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)

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