Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	I	Y	I	G	W	L	F	K	L	I	P	L	I	M	G	L	I	C	I	A	L	G	G	F	V	L	E	S	S	G	Q	S	E	Y	F	V	A	G	H	V	L	I	S	L	A	A	I	C	L	A	L	F	T	T	A	F	I	I
Secondary structure
SS confidence
Disorder		?	?	?																															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	S	Q	L	T	R	G	V	N	T	F	Y	N	T	L	F	P	I	I	G	Y	A	G	S	I	I	T	M	I	W	G	W	A	L	L	A	G	N	D	V	M	A	D	E	F	V	A	G	H	V	I	F	G	V	G	M	I	A	A	C
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	S	T	V	A	A	S	S	G	H	F	L	L	I	P	K	N	A	A	G	S	K	S	D	G	T	P	V	Q	A	Y	S	S	L	I	G	N	C	L	I	A	V	P	V	L	L	T	L	L	G	F	I	W	S	I	T	L	L	R	S
Secondary structure
SS confidence
Disorder						?	?			?							?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	D	I	T	P	H	Y	V	A	G	H	V	L	L	G	L	T	A	I	C	A	C	L	I	G	L	V	A	T	I	V	H	Q	T	R	N	T	F	S	T	K	E	H	W	L	W	C	Y	W	V	I	F	L	G	S	I	T	V	L	Q
Secondary structure
SS confidence
Disorder																																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	I	Y	V	L	V	S	S	D	A	S	A	R	L	A	P	G	I	I	L	I	C	L	G	M	I	C	Y	S	I	F	S	K	V	W	L	L	A	L	V	W	R	R	T	C	S	L	A	N	R	I	P	M	I	P	V	F	T	C	L
Secondary structure
SS confidence
Disorder											?	?			?																												?	?			?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350
Sequence		F	C	L	F	L	A	S	F	L	A	E	M	A	Q	T	D	M	G	Y	F	I	P	S	R	V	L	V	G	L	G	A	V	C	F	T	L	F	S	I	V	S	I	L	E	A	G	S	A	K	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 2hg5 chain D Region: 182 - 225 Aligned: 42 Modelled: 44 Confidence: 22.5% Identity: 14% 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 1jb0 chain L Region: 178 - 224 Aligned: 45 Modelled: 47 Confidence: 20.1% Identity: 27% Fold: Photosystem I reaction center subunit XI, PsaL Superfamily: Photosystem I reaction center subunit XI, PsaL Family: Photosystem I reaction center subunit XI, PsaL Phyre2 PDB 2i53 chain A domain 1 Region: 268 - 311 Aligned: 44 Modelled: 44 Confidence: 14.4% Identity: 16% Fold: Cyclin-like Superfamily: Cyclin-like Family: Cyclin Phyre2 PDB 1f6g chain A Region: 170 - 225 Aligned: 54 Modelled: 56 Confidence: 12.8% Identity: 15% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 1s6x chain A Region: 223 - 229 Aligned: 7 Modelled: 7 Confidence: 12.2% Identity: 43% PDB header:toxin Chain: A: PDB Molecule:kvap channel; PDBTitle: solution structure of vstx Phyre2 PDB 1v54 chain J Region: 142 - 178 Aligned: 37 Modelled: 37 Confidence: 11.6% Identity: 30% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIa Family: Mitochondrial cytochrome c oxidase subunit VIIa Phyre2 PDB 3oa1 chain B Region: 204 - 221 Aligned: 18 Modelled: 18 Confidence: 10.6% Identity: 39% PDB header:chaperone Chain: B: PDB Molecule:phosphoprotein; PDBTitle: crystal structure of phosphoprotein/protein p/protein m1 residues 69-2 297 from rabies virus reveals degradation to c-terminal domain only Phyre2 PDB 1flc chain A domain 1 Region: 125 - 138 Aligned: 14 Modelled: 14 Confidence: 10.4% Identity: 43% Fold: Viral protein domain Superfamily: Viral protein domain Family: Hemagglutinin domain of haemagglutinin-esterase-fusion glycoprotein HEF1 Phyre2 PDB 2bs2 chain C domain 1 Region: 219 - 246 Aligned: 28 Modelled: 28 Confidence: 10.3% Identity: 11% Fold: Heme-binding four-helical bundle Superfamily: Fumarate reductase respiratory complex transmembrane subunits Family: Fumarate reductase respiratory complex cytochrome b subunit, FrdC Phyre2 PDB 1v74 chain B Region: 281 - 319 Aligned: 37 Modelled: 39 Confidence: 9.9% Identity: 22% Fold: Four-helical up-and-down bundle Superfamily: Colicin D immunity protein Family: Colicin D immunity protein Phyre2 PDB 1vyi chain A Region: 204 - 221 Aligned: 18 Modelled: 18 Confidence: 9.4% Identity: 39% Fold: Phosphoprotein M1, C-terminal domain Superfamily: Phosphoprotein M1, C-terminal domain Family: Phosphoprotein M1, C-terminal domain Phyre2 PDB 2ivx chain A domain 1 Region: 266 - 311 Aligned: 46 Modelled: 46 Confidence: 9.4% Identity: 15% Fold: Cyclin-like Superfamily: Cyclin-like Family: Cyclin Phyre2 PDB 2y69 chain W Region: 142 - 178 Aligned: 37 Modelled: 37 Confidence: 9.1% Identity: 30% PDB header:electron transport Chain: W: PDB Molecule:cytochrome c oxidase polypeptide 7a1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 PDB 2kb1 chain A Region: 170 - 225 Aligned: 54 Modelled: 56 Confidence: 8.9% Identity: 17% PDB header:membrane protein Chain: A: PDB Molecule:wsk3; PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa Phyre2 PDB 3kfo chain A Region: 272 - 283 Aligned: 12 Modelled: 12 Confidence: 8.8% Identity: 67% PDB header:protein transport Chain: A: PDB Molecule:nucleoporin nup133; PDBTitle: crystal structure of the c-terminal domain from the nuclear pore2 complex component nup133 from saccharomyces cerevisiae Phyre2 PDB 1qhb chain A Region: 181 - 199 Aligned: 19 Modelled: 19 Confidence: 8.7% Identity: 21% Fold: Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily: Acid phosphatase/Vanadium-dependent haloperoxidase Family: Haloperoxidase (bromoperoxidase) Phyre2 PDB 1up8 chain A Region: 181 - 199 Aligned: 19 Modelled: 19 Confidence: 8.5% Identity: 21% Fold: Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily: Acid phosphatase/Vanadium-dependent haloperoxidase Family: Haloperoxidase (bromoperoxidase) Phyre2 PDB 1qi9 chain A Region: 181 - 199 Aligned: 19 Modelled: 19 Confidence: 8.5% Identity: 21% Fold: Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily: Acid phosphatase/Vanadium-dependent haloperoxidase Family: Haloperoxidase (bromoperoxidase) Phyre2 PDB 1iye chain A Region: 210 - 230 Aligned: 21 Modelled: 21 Confidence: 7.7% Identity: 29% Fold: D-aminoacid aminotransferase-like PLP-dependent enzymes Superfamily: D-aminoacid aminotransferase-like PLP-dependent enzymes Family: D-aminoacid aminotransferase-like PLP-dependent enzymes Phyre2 PDB 2hkj chain A domain 2 Region: 288 - 294 Aligned: 7 Modelled: 7 Confidence: 7.4% Identity: 71% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: DNA gyrase/MutL, second domain Phyre2 1 c2hg5D_ 2 d1jb0l_ 3 d2i53a1 4 d1f6ga_ 5 c1s6xA_ 6 d1v54j_ 7 c3oa1B_ 8 d1flca1 9 d2bs2c1 10 d1v74b_ 11 d1vyia_ 12 d2ivxa1 13 c2y69W_ 14 c2kb1A_ 15 c3kfoA_ 16 d1qhba_ 17 d1up8a_ 18 d1qi9a_ 19 d1iyea_ 20 d2hkja2 21 22 23 24

Detailed template information

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

1 c2hg5D_ 22.5 14 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 2 d1jb0l_ 20.1 27 Fold:Photosystem I reaction center subunit XI, PsaL Superfamily:Photosystem I reaction center subunit XI, PsaL Family:Photosystem I reaction center subunit XI, PsaL 3 d2i53a1 14.4 16 Fold:Cyclin-like Superfamily:Cyclin-like Family:Cyclin 4 d1f6ga_ 12.8 15 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 5 c1s6xA_ 12.2 43 PDB header:toxin Chain: A: PDB Molecule:kvap channel; PDBTitle: solution structure of vstx 6 d1v54j_ 11.6 30 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIa Family:Mitochondrial cytochrome c oxidase subunit VIIa 7 c3oa1B_ 10.6 39 PDB header:chaperone Chain: B: PDB Molecule:phosphoprotein; PDBTitle: crystal structure of phosphoprotein/protein p/protein m1 residues 69-2 297 from rabies virus reveals degradation to c-terminal domain only 8 d1flca1 10.4 43 Fold:Viral protein domain Superfamily:Viral protein domain Family:Hemagglutinin domain of haemagglutinin-esterase-fusion glycoprotein HEF1 9 d2bs2c1 10.3 11 Fold:Heme-binding four-helical bundle Superfamily:Fumarate reductase respiratory complex transmembrane subunits Family:Fumarate reductase respiratory complex cytochrome b subunit, FrdC 10 d1v74b_ 9.9 22 Fold:Four-helical up-and-down bundle Superfamily:Colicin D immunity protein Family:Colicin D immunity protein 11 d1vyia_ 9.4 39 Fold:Phosphoprotein M1, C-terminal domain Superfamily:Phosphoprotein M1, C-terminal domain Family:Phosphoprotein M1, C-terminal domain 12 d2ivxa1 9.4 15 Fold:Cyclin-like Superfamily:Cyclin-like Family:Cyclin 13 c2y69W_ 9.1 30 PDB header:electron transport Chain: W: PDB Molecule:cytochrome c oxidase polypeptide 7a1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 14 c2kb1A_ 8.9 17 PDB header:membrane protein Chain: A: PDB Molecule:wsk3; PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa 15 c3kfoA_ 8.8 67 PDB header:protein transport Chain: A: PDB Molecule:nucleoporin nup133; PDBTitle: crystal structure of the c-terminal domain from the nuclear pore2 complex component nup133 from saccharomyces cerevisiae 16 d1qhba_ 8.7 21 Fold:Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily:Acid phosphatase/Vanadium-dependent haloperoxidase Family:Haloperoxidase (bromoperoxidase) 17 d1up8a_ 8.5 21 Fold:Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily:Acid phosphatase/Vanadium-dependent haloperoxidase Family:Haloperoxidase (bromoperoxidase) 18 d1qi9a_ 8.5 21 Fold:Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily:Acid phosphatase/Vanadium-dependent haloperoxidase Family:Haloperoxidase (bromoperoxidase) 19 d1iyea_ 7.7 29 Fold:D-aminoacid aminotransferase-like PLP-dependent enzymes Superfamily:D-aminoacid aminotransferase-like PLP-dependent enzymes Family:D-aminoacid aminotransferase-like PLP-dependent enzymes 20 d2hkja2 7.4 71 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:DNA gyrase/MutL, second domain 21 c1uf2K_ not modelled 7.0 57 PDB header:virus Chain: K: PDB Molecule:structural protein p7; PDBTitle: the atomic structure of rice dwarf virus (rdv) 22 c2xtzB_ not modelled 5.8 23 PDB header:hydrolase Chain: B: PDB Molecule:guanine nucleotide-binding protein alpha-1 subunit; PDBTitle: crystal structure of the g alpha protein atgpa1 from2 arabidopsis thaliana 23 c1y4eA_ not modelled 5.3 67 PDB header:membrane protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: nmr structure of transmembrane segment iv of the nhe12 isoform of the na+/h+ exchanger 24 c1zcbA_ not modelled 5.1 18 PDB header:signaling protein Chain: A: PDB Molecule:g alpha i/13; PDBTitle: crystal structure of g alpha 13 in complex with gdp

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