Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	M	S	T	S	T	E	V	I	A	H	H	W	A	F	A	I	F	L	I	V	A	I	G	L	C	C	L	M	L	V	G	G	W	F	L	G	G	R	A	R	A	R	S	K	N	V	P	F	E	S	G	I	D	S	V	G	S	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																															?	?	?	?	?	?	?	?	?	?	?	?	?							?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	L	R	L	S	A	K	F	Y	L	V	A	M	F	F	V	I	F	D	V	E	A	L	Y	L	F	A	W	S	T	S	I	R	E	S	G	W	V	G	F	V	E	A	A	I	F	I	F	V	L	L	A	G	L	V	Y	L	V	R	I
Secondary structure
SS confidence
Disorder		?																																		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.
Sequence		G	A	L	D	W	T	P	A	R	S	R	R	E	R	M	N	P	E	T	N	S	I	A	N	R	Q	R
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 3rko chain A Region: 15 - 126 Aligned: 95 Modelled: 95 Confidence: 100.0% Identity: 98% PDB header:oxidoreductase Chain: A: PDB Molecule:nadh-quinone oxidoreductase subunit a; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 PDB 2k21 chain A Region: 100 - 137 Aligned: 31 Modelled: 38 Confidence: 32.0% Identity: 13% 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 Phyre2 PDB 1jwy chain A domain 1 Region: 41 - 53 Aligned: 13 Modelled: 13 Confidence: 25.8% Identity: 15% Fold: SH3-like barrel Superfamily: Myosin S1 fragment, N-terminal domain Family: Myosin S1 fragment, N-terminal domain Phyre2 PDB 3bz7 chain A domain 1 Region: 41 - 53 Aligned: 13 Modelled: 13 Confidence: 25.5% Identity: 15% Fold: SH3-like barrel Superfamily: Myosin S1 fragment, N-terminal domain Family: Myosin S1 fragment, N-terminal domain Phyre2 PDB 1dtd chain B Region: 119 - 134 Aligned: 16 Modelled: 16 Confidence: 20.2% Identity: 38% Fold: Carboxypeptidase inhibitor Superfamily: Carboxypeptidase inhibitor Family: Carboxypeptidase inhibitor Phyre2 PDB 3fy6 chain A Region: 110 - 124 Aligned: 15 Modelled: 15 Confidence: 16.9% Identity: 40% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:integron cassette protein; PDBTitle: structure from the mobile metagenome of v. cholerae.2 integron cassette protein vch_cass3 Phyre2 PDB 1zrt chain D Region: 101 - 120 Aligned: 19 Modelled: 20 Confidence: 14.2% Identity: 21% PDB header:oxidoreductase/metal transport Chain: D: PDB Molecule:cytochrome c1; PDBTitle: rhodobacter capsulatus cytochrome bc1 complex with2 stigmatellin bound Phyre2 PDB 2fyn chain H Region: 101 - 120 Aligned: 19 Modelled: 20 Confidence: 11.2% Identity: 37% PDB header:oxidoreductase Chain: H: PDB Molecule:cytochrome c1; PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex Phyre2 PDB 2csh chain A domain 2 Region: 49 - 53 Aligned: 5 Modelled: 5 Confidence: 10.9% Identity: 40% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1k32 chain A domain 1 Region: 38 - 58 Aligned: 21 Modelled: 21 Confidence: 9.2% Identity: 38% Fold: PDZ domain-like Superfamily: PDZ domain-like Family: Tail specific protease PDZ domain Phyre2 PDB 2adr chain A domain 2 Region: 49 - 54 Aligned: 6 Modelled: 6 Confidence: 8.6% Identity: 33% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1t0j chain C Region: 117 - 138 Aligned: 22 Modelled: 12 Confidence: 6.5% Identity: 18% PDB header:signaling protein Chain: C: PDB Molecule:voltage-dependent l-type calcium channel alpha-1c subunit; PDBTitle: crystal structure of a complex between voltage-gated calcium channel2 beta2a subunit and a peptide of the alpha1c subunit Phyre2 PDB 2yiu chain E Region: 101 - 120 Aligned: 19 Modelled: 20 Confidence: 6.2% Identity: 42% PDB header:oxidoreductase Chain: E: PDB Molecule:cytochrome c1, heme protein; PDBTitle: x-ray structure of the dimeric cytochrome bc1 complex from2 the soil bacterium paracoccus denitrificans at 2.73 angstrom resolution Phyre2 PDB 3mk7 chain F Region: 12 - 87 Aligned: 75 Modelled: 76 Confidence: 6.1% Identity: 15% PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 PDB 1vyt chain F Region: 117 - 140 Aligned: 24 Modelled: 14 Confidence: 5.6% Identity: 17% PDB header:transport protein Chain: F: PDB Molecule:voltage-dependent l-type calcium channel PDBTitle: beta3 subunit complexed with aid Phyre2 PDB 1p84 chain D Region: 101 - 130 Aligned: 29 Modelled: 30 Confidence: 5.2% Identity: 17% PDB header:oxidoreductase Chain: D: PDB Molecule:cytochrome c1, heme protein; PDBTitle: hdbt inhibited yeast cytochrome bc1 complex Phyre2 1 c3rkoA_ 2 c2k21A_ 3 d1jwya1 4 d3bz7a1 5 d1dtdb_ 6 c3fy6A_ 7 c1zrtD_ 8 c2fynH_ 9 d2csha2 10 d1k32a1 11 d2adra2 12 c1t0jC_ 13 c2yiuE_ 14 c3mk7F_ 15 c1vytF_ 16 c1p84D_

Detailed template information

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

1 c3rkoA_ 100.0 98 PDB header:oxidoreductase Chain: A: PDB Molecule:nadh-quinone oxidoreductase subunit a; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution 2 c2k21A_ 32.0 13 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 3 d1jwya1 25.8 15 Fold:SH3-like barrel Superfamily:Myosin S1 fragment, N-terminal domain Family:Myosin S1 fragment, N-terminal domain 4 d3bz7a1 25.5 15 Fold:SH3-like barrel Superfamily:Myosin S1 fragment, N-terminal domain Family:Myosin S1 fragment, N-terminal domain 5 d1dtdb_ 20.2 38 Fold:Carboxypeptidase inhibitor Superfamily:Carboxypeptidase inhibitor Family:Carboxypeptidase inhibitor 6 c3fy6A_ 16.9 40 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:integron cassette protein; PDBTitle: structure from the mobile metagenome of v. cholerae.2 integron cassette protein vch_cass3 7 c1zrtD_ 14.2 21 PDB header:oxidoreductase/metal transport Chain: D: PDB Molecule:cytochrome c1; PDBTitle: rhodobacter capsulatus cytochrome bc1 complex with2 stigmatellin bound 8 c2fynH_ 11.2 37 PDB header:oxidoreductase Chain: H: PDB Molecule:cytochrome c1; PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex 9 d2csha2 10.9 40 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 10 d1k32a1 9.2 38 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:Tail specific protease PDZ domain 11 d2adra2 8.6 33 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 12 c1t0jC_ 6.5 18 PDB header:signaling protein Chain: C: PDB Molecule:voltage-dependent l-type calcium channel alpha-1c subunit; PDBTitle: crystal structure of a complex between voltage-gated calcium channel2 beta2a subunit and a peptide of the alpha1c subunit 13 c2yiuE_ 6.2 42 PDB header:oxidoreductase Chain: E: PDB Molecule:cytochrome c1, heme protein; PDBTitle: x-ray structure of the dimeric cytochrome bc1 complex from2 the soil bacterium paracoccus denitrificans at 2.73 angstrom resolution 14 c3mk7F_ 6.1 15 PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase 15 c1vytF_ 5.6 17 PDB header:transport protein Chain: F: PDB Molecule:voltage-dependent l-type calcium channel PDBTitle: beta3 subunit complexed with aid 16 c1p84D_ 5.2 17 PDB header:oxidoreductase Chain: D: PDB Molecule:cytochrome c1, heme protein; PDBTitle: hdbt inhibited yeast cytochrome bc1 complex

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