Secondary structure and disorder prediction

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Sequence		M	P	S	G	N	Q	E	P	R	R	D	P	E	L	K	R	K	A	W	L	A	V	F	L	G	S	A	L	F	W	V	V	V	A	L	L	I	W	K	V	W	G
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 2x2v chain G Region: 10 - 37 Aligned: 28 Modelled: 28 Confidence: 40.4% Identity: 39% PDB header:membrane protein Chain: G: PDB Molecule:atp synthase subunit c; PDBTitle: structural basis of a novel proton-coordination type in an2 f1fo-atp synthase rotor ring Phyre2 PDB 1yce chain D Region: 10 - 37 Aligned: 28 Modelled: 28 Confidence: 32.0% Identity: 36% PDB header:membrane protein Chain: D: PDB Molecule:subunit c; PDBTitle: structure of the rotor ring of f-type na+-atpase from ilyobacter2 tartaricus Phyre2 PDB 2w5j chain M Region: 10 - 37 Aligned: 28 Modelled: 28 Confidence: 30.9% Identity: 39% PDB header:hydrolase Chain: M: PDB Molecule:atp synthase c chain, chloroplastic; PDBTitle: structure of the c14-rotor ring of the proton translocating2 chloroplast atp synthase Phyre2 PDB 2wpd chain P Region: 10 - 37 Aligned: 28 Modelled: 28 Confidence: 29.3% Identity: 39% PDB header:hydrolase Chain: P: PDB Molecule:atp synthase subunit 9, mitochondrial; PDBTitle: the mg.adp inhibited state of the yeast f1c10 atp synthase Phyre2 PDB 1shz chain F Region: 16 - 35 Aligned: 20 Modelled: 20 Confidence: 23.6% Identity: 35% PDB header:signaling protein Chain: F: PDB Molecule:rho guanine nucleotide exchange factor 1; PDBTitle: crystal structure of the p115rhogef rgrgs domain in a2 complex with galpha(13):galpha(i1) chimera Phyre2 PDB 1wu0 chain A Region: 10 - 28 Aligned: 19 Modelled: 19 Confidence: 21.6% Identity: 42% PDB header:hydrolase Chain: A: PDB Molecule:atp synthase c chain; PDBTitle: solution structure of subunit c of f1fo-atp synthase from2 the thermophilic bacillus ps3 Phyre2 PDB 1htj chain F Region: 15 - 35 Aligned: 21 Modelled: 21 Confidence: 20.5% Identity: 38% Fold: Regulator of G-protein signaling, RGS Superfamily: Regulator of G-protein signaling, RGS Family: Regulator of G-protein signaling, RGS Phyre2 PDB 1htj chain F Region: 15 - 35 Aligned: 21 Modelled: 21 Confidence: 20.5% Identity: 38% PDB header:signaling protein Chain: F: PDB Molecule:kiaa0380; PDBTitle: structure of the rgs-like domain from pdz-rhogef Phyre2 PDB 1iap chain A Region: 16 - 35 Aligned: 20 Modelled: 20 Confidence: 18.9% Identity: 35% Fold: Regulator of G-protein signaling, RGS Superfamily: Regulator of G-protein signaling, RGS Family: Regulator of G-protein signaling, RGS Phyre2 PDB 1ceu chain A Region: 2 - 12 Aligned: 11 Modelled: 11 Confidence: 17.4% Identity: 36% PDB header:viral protein Chain: A: PDB Molecule:protein (hiv-1 regulatory protein n-terminal PDBTitle: nmr structure of the (1-51) n-terminal domain of the hiv-12 regulatory protein Phyre2 PDB 2lat chain A Region: 16 - 40 Aligned: 25 Modelled: 25 Confidence: 10.2% Identity: 36% PDB header:membrane protein Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein PDBTitle: solution structure of a human minimembrane protein ost4 Phyre2 PDB 1xme chain B domain 2 Region: 16 - 38 Aligned: 21 Modelled: 23 Confidence: 9.6% Identity: 43% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 2xnd chain K Region: 10 - 37 Aligned: 28 Modelled: 28 Confidence: 8.1% Identity: 43% PDB header:hydrolase Chain: K: PDB Molecule:atp synthase lipid-binding protein, mitochondrial; PDBTitle: crystal structure of bovine f1-c8 sub-complex of atp2 synthase Phyre2 PDB 3bc1 chain F Region: 9 - 17 Aligned: 9 Modelled: 9 Confidence: 8.1% Identity: 56% PDB header:signaling protein/transport protein Chain: F: PDB Molecule:synaptotagmin-like protein 2; PDBTitle: crystal structure of the complex rab27a-slp2a Phyre2 PDB 1m8l chain A Region: 2 - 18 Aligned: 17 Modelled: 17 Confidence: 8.0% Identity: 47% PDB header:viral protein Chain: A: PDB Molecule:vpr protein; PDBTitle: nmr structure of the hiv-1 regulatory protein vpr Phyre2 PDB 1sg7 chain A Region: 4 - 22 Aligned: 19 Modelled: 19 Confidence: 8.0% Identity: 42% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative cation transport regulator chab; PDBTitle: nmr solution structure of the putative cation transport2 regulator chab Phyre2 PDB 1sg7 chain A domain 1 Region: 4 - 22 Aligned: 19 Modelled: 19 Confidence: 8.0% Identity: 42% Fold: ChaB-like Superfamily: ChaB-like Family: ChaB-like Phyre2 PDB 3h87 chain D Region: 11 - 19 Aligned: 9 Modelled: 9 Confidence: 7.6% Identity: 78% PDB header:toxin/antitoxin Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: rv0301 rv0300 toxin antitoxin complex from mycobacterium tuberculosis Phyre2 PDB 3mwz chain A Region: 1 - 22 Aligned: 22 Modelled: 22 Confidence: 7.5% Identity: 27% PDB header:hydrolase inhibitor Chain: A: PDB Molecule:sialostatin l2; PDBTitle: crystal structure of the selenomethionine derivative of the l 22,47,2 100 m mutant of sialostatin l2 Phyre2 PDB 1nek chain C Region: 12 - 38 Aligned: 27 Modelled: 27 Confidence: 6.8% Identity: 15% Fold: Heme-binding four-helical bundle Superfamily: Fumarate reductase respiratory complex transmembrane subunits Family: Succinate dehydrogenase/Fumarate reductase transmembrane subunits (SdhC/FrdC and SdhD/FrdD) Phyre2 1 c2x2vG_ 2 c1yceD_ 3 c2w5jM_ 4 c2wpdP_ 5 c1shzF_ 6 c1wu0A_ 7 d1htjf_ 8 c1htjF_ 9 d1iapa_ 10 c1ceuA_ 11 c2latA_ 12 d1xmeb2 13 c2xndK_ 14 c3bc1F_ 15 c1m8lA_ 16 c1sg7A_ 17 d1sg7a1 18 c3h87D_ 19 c3mwzA_ 20 d1nekc_ 21 22

Detailed template information

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

1 c2x2vG_ 40.4 39 PDB header:membrane protein Chain: G: PDB Molecule:atp synthase subunit c; PDBTitle: structural basis of a novel proton-coordination type in an2 f1fo-atp synthase rotor ring 2 c1yceD_ 32.0 36 PDB header:membrane protein Chain: D: PDB Molecule:subunit c; PDBTitle: structure of the rotor ring of f-type na+-atpase from ilyobacter2 tartaricus 3 c2w5jM_ 30.9 39 PDB header:hydrolase Chain: M: PDB Molecule:atp synthase c chain, chloroplastic; PDBTitle: structure of the c14-rotor ring of the proton translocating2 chloroplast atp synthase 4 c2wpdP_ 29.3 39 PDB header:hydrolase Chain: P: PDB Molecule:atp synthase subunit 9, mitochondrial; PDBTitle: the mg.adp inhibited state of the yeast f1c10 atp synthase 5 c1shzF_ 23.6 35 PDB header:signaling protein Chain: F: PDB Molecule:rho guanine nucleotide exchange factor 1; PDBTitle: crystal structure of the p115rhogef rgrgs domain in a2 complex with galpha(13):galpha(i1) chimera 6 c1wu0A_ 21.6 42 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase c chain; PDBTitle: solution structure of subunit c of f1fo-atp synthase from2 the thermophilic bacillus ps3 7 d1htjf_ 20.5 38 Fold:Regulator of G-protein signaling, RGS Superfamily:Regulator of G-protein signaling, RGS Family:Regulator of G-protein signaling, RGS 8 c1htjF_ 20.5 38 PDB header:signaling protein Chain: F: PDB Molecule:kiaa0380; PDBTitle: structure of the rgs-like domain from pdz-rhogef 9 d1iapa_ 18.9 35 Fold:Regulator of G-protein signaling, RGS Superfamily:Regulator of G-protein signaling, RGS Family:Regulator of G-protein signaling, RGS 10 c1ceuA_ 17.4 36 PDB header:viral protein Chain: A: PDB Molecule:protein (hiv-1 regulatory protein n-terminal PDBTitle: nmr structure of the (1-51) n-terminal domain of the hiv-12 regulatory protein 11 c2latA_ 10.2 36 PDB header:membrane protein Chain: A: PDB Molecule:dolichyl-diphosphooligosaccharide--protein PDBTitle: solution structure of a human minimembrane protein ost4 12 d1xmeb2 9.6 43 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 13 c2xndK_ 8.1 43 PDB header:hydrolase Chain: K: PDB Molecule:atp synthase lipid-binding protein, mitochondrial; PDBTitle: crystal structure of bovine f1-c8 sub-complex of atp2 synthase 14 c3bc1F_ 8.1 56 PDB header:signaling protein/transport protein Chain: F: PDB Molecule:synaptotagmin-like protein 2; PDBTitle: crystal structure of the complex rab27a-slp2a 15 c1m8lA_ 8.0 47 PDB header:viral protein Chain: A: PDB Molecule:vpr protein; PDBTitle: nmr structure of the hiv-1 regulatory protein vpr 16 c1sg7A_ 8.0 42 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative cation transport regulator chab; PDBTitle: nmr solution structure of the putative cation transport2 regulator chab 17 d1sg7a1 8.0 42 Fold:ChaB-like Superfamily:ChaB-like Family:ChaB-like 18 c3h87D_ 7.6 78 PDB header:toxin/antitoxin Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: rv0301 rv0300 toxin antitoxin complex from mycobacterium tuberculosis 19 c3mwzA_ 7.5 27 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:sialostatin l2; PDBTitle: crystal structure of the selenomethionine derivative of the l 22,47,2 100 m mutant of sialostatin l2 20 d1nekc_ 6.8 15 Fold:Heme-binding four-helical bundle Superfamily:Fumarate reductase respiratory complex transmembrane subunits Family:Succinate dehydrogenase/Fumarate reductase transmembrane subunits (SdhC/FrdC and SdhD/FrdD) 21 d1c99a_ not modelled 6.3 24 Fold:Transmembrane helix hairpin Superfamily:F1F0 ATP synthase subunit C Family:F1F0 ATP synthase subunit C 22 c2o8gJ_ not modelled 5.7 35 PDB header:hydrolase/inhibitor Chain: J: PDB Molecule:protein phosphatase inhibitor 2; PDBTitle: rat pp1c gamma complexed with mouse inhibitor-2

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