Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	V	F	A	L	L	A	L	V	A	Y	S	V	S	L	A	L	I	V	P	G	L	L	Q	K	N	G	G	W	R	R	M	A	I	I	S	A	V	I	A	L	V	C	H	A	I	A	L	E	A	R	I	L	P	D	G	D	S	G
Secondary structure
SS confidence
Disorder		?	?																						?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	N	L	S	L	L	N	V	G	S	L	V	S	L	M	I	C	T	V	M	T	I	V	A	S	R	N	R	G	W	L	L	L	P	I	V	Y	A	F	A	L	I	N	L	A	L	A	T	F	M	P	N	E	Y	I	T	H	L	E	A
Secondary structure
SS confidence
Disorder																											?	?	?																					?	?			?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	P	G	M	L	V	H	I	G	L	S	L	F	S	Y	A	T	L	I	I	A	A	L	Y	A	L	Q	L	A	W	I	D	Y	Q	L	K	N	K	K	L	A	F	N	Q	E	M	P	P	L	M	S	I	E	R	K	M	F	H	I	T
Secondary structure
SS confidence
Disorder																																				?	?	?	?	?	?	?			?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Q	I	G	V	V	L	L	T	L	T	L	C	T	G	L	F	Y	M	H	N	L	F	S	M	E	N	I	D	K	A	V	L	S	I	V	A	W	F	V	Y	I	V	L	L	W	G	H	Y	H	E	G	W	R	G	R	R	V	V	W	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.
Sequence		N	V	A	G	A	V	I	L	T	L	A	Y	F	G	S	R	I	V	Q	Q	L	I	S
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 3dtu chain A domain 1 Region: 88 - 248 Aligned: 161 Modelled: 161 Confidence: 30.7% Identity: 11% 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: 88 - 248 Aligned: 161 Modelled: 161 Confidence: 15.3% Identity: 9% PDB header:oxidoreductase Chain: G: PDB Molecule:cytochrome c oxidase; PDBTitle: structure of cytochrome c oxidase from rhodobactor2 sphaeroides (wild type) Phyre2 PDB 1v54 chain A Region: 88 - 248 Aligned: 161 Modelled: 160 Confidence: 10.5% Identity: 8% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 1ar1 chain A Region: 88 - 248 Aligned: 161 Modelled: 161 Confidence: 9.6% 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 3ol4 chain B Region: 164 - 186 Aligned: 23 Modelled: 23 Confidence: 7.7% Identity: 17% PDB header:unknown function Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of a putative uncharacterized protein from2 mycobacterium smegmatis, an ortholog of rv0543c Phyre2 PDB 1fft chain F Region: 88 - 248 Aligned: 161 Modelled: 161 Confidence: 5.9% Identity: 10% PDB header:oxidoreductase Chain: F: PDB Molecule:ubiquinol oxidase; PDBTitle: the structure of ubiquinol oxidase from escherichia coli Phyre2 PDB 1fft chain A Region: 88 - 248 Aligned: 161 Modelled: 161 Confidence: 5.9% Identity: 10% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 1 d3dtua1 2 c1m56G_ 3 d1v54a_ 4 d1ar1a_ 5 c3ol4B_ 6 c1fftF_ 7 d1ffta_

Detailed template information

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

1 d3dtua1 30.7 11 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 2 c1m56G_ 15.3 9 PDB header:oxidoreductase Chain: G: PDB Molecule:cytochrome c oxidase; PDBTitle: structure of cytochrome c oxidase from rhodobactor2 sphaeroides (wild type) 3 d1v54a_ 10.5 8 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 4 d1ar1a_ 9.6 13 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 5 c3ol4B_ 7.7 17 PDB header:unknown function Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of a putative uncharacterized protein from2 mycobacterium smegmatis, an ortholog of rv0543c 6 c1fftF_ 5.9 10 PDB header:oxidoreductase Chain: F: PDB Molecule:ubiquinol oxidase; PDBTitle: the structure of ubiquinol oxidase from escherichia coli 7 d1ffta_ 5.9 10 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like

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