Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	S	R	F	M	L	I	F	A	A	I	S	G	F	I	F	V	A	L	G	A	F	G	A	H	V	L	S	K	T	M	G	A	V	E	M	G	W	I	Q	T	G	L	E	Y	Q	A	F	H	T	L	A	I	L	G	L	A	V	A
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	Q	R	R	I	S	I	W	F	Y	W	S	S	V	F	L	A	L	G	T	V	L	F	S	G	S	L	Y	C	L	A	L	S	H	L	R	L	W	A	F	V	T	P	V	G	G	V	S	F	L	A	G	W	A	L	M	L	V	G	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.
Sequence		I	R	L	K	R	K	G	V	S	H	E
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 1xme chain A domain 1 Region: 66 - 131 Aligned: 66 Modelled: 66 Confidence: 57.3% Identity: 18% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 3dtu chain A domain 1 Region: 59 - 129 Aligned: 71 Modelled: 71 Confidence: 55.7% Identity: 15% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 3eh4 chain A Region: 66 - 131 Aligned: 66 Modelled: 66 Confidence: 52.4% Identity: 18% PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus Phyre2 PDB 1ar1 chain A Region: 62 - 131 Aligned: 70 Modelled: 70 Confidence: 39.2% Identity: 10% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 1m56 chain G Region: 59 - 129 Aligned: 71 Modelled: 71 Confidence: 34.4% Identity: 11% PDB header:oxidoreductase Chain: G: PDB Molecule:cytochrome c oxidase; PDBTitle: structure of cytochrome c oxidase from rhodobactor2 sphaeroides (wild type) Phyre2 PDB 1fft chain A Region: 59 - 131 Aligned: 73 Modelled: 73 Confidence: 33.0% Identity: 15% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 1fft chain F Region: 59 - 131 Aligned: 73 Modelled: 73 Confidence: 33.0% Identity: 15% PDB header:oxidoreductase Chain: F: PDB Molecule:ubiquinol oxidase; PDBTitle: the structure of ubiquinol oxidase from escherichia coli Phyre2 PDB 1v54 chain A Region: 43 - 129 Aligned: 87 Modelled: 87 Confidence: 18.6% Identity: 13% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 3mk7 chain K Region: 4 - 131 Aligned: 127 Modelled: 128 Confidence: 15.8% Identity: 17% PDB header:oxidoreductase Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 PDB 3pt1 chain A Region: 81 - 104 Aligned: 24 Modelled: 24 Confidence: 10.7% Identity: 33% PDB header:hydrolase Chain: A: PDB Molecule:upf0364 protein ymr027w; PDBTitle: structure of duf89 from saccharomyces cerevisiae co-crystallized with2 f6p. Phyre2 1 d1xmea1 2 d3dtua1 3 c3eh4A_ 4 d1ar1a_ 5 c1m56G_ 6 d1ffta_ 7 c1fftF_ 8 d1v54a_ 9 c3mk7K_ 10 c3pt1A_

Detailed template information

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

1 d1xmea1 57.3 18 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 2 d3dtua1 55.7 15 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 3 c3eh4A_ 52.4 18 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus 4 d1ar1a_ 39.2 10 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 5 c1m56G_ 34.4 11 PDB header:oxidoreductase Chain: G: PDB Molecule:cytochrome c oxidase; PDBTitle: structure of cytochrome c oxidase from rhodobactor2 sphaeroides (wild type) 6 d1ffta_ 33.0 15 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 7 c1fftF_ 33.0 15 PDB header:oxidoreductase Chain: F: PDB Molecule:ubiquinol oxidase; PDBTitle: the structure of ubiquinol oxidase from escherichia coli 8 d1v54a_ 18.6 13 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 9 c3mk7K_ 15.8 17 PDB header:oxidoreductase Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n; PDBTitle: the structure of cbb3 cytochrome oxidase 10 c3pt1A_ 10.7 33 PDB header:hydrolase Chain: A: PDB Molecule:upf0364 protein ymr027w; PDBTitle: structure of duf89 from saccharomyces cerevisiae co-crystallized with2 f6p.

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