Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	T	D	T	L	T	H	A	T	A	H	A	H	E	H	G	H	H	D	A	G	G	T	K	I	F	G	F	W	I	Y	L	M	S	D	C	I	L	F	S	I	L	F	A	T	Y	A	V	L	V	N	G	T	A	G	G	P	T	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																														?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	D	I	F	E	L	P	F	V	L	V	E	T	F	L	L	L	F	S	S	I	T	Y	G	M	A	A	I	A	M	Y	K	N	N	K	S	Q	V	I	S	W	L	A	L	T	W	L	F	G	A	G	F	I	G	M	E	I	Y	E	F
Secondary structure
SS confidence
Disorder						?																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		H	H	L	I	V	N	G	M	G	P	D	R	S	G	F	L	S	A	F	F	A	L	V	G	T	H	G	L	H	V	T	S	G	L	I	W	M	A	V	L	M	V	Q	I	A	R	R	G	L	T	S	T	N	R	T	R	I	M	C	L
Secondary structure
SS confidence
Disorder																																																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.
Sequence		S	L	F	W	H	F	L	D	V	V	W	I	C	V	F	T	V	V	Y	L	M	G	A	M
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 1fft chain C Region: 19 - 203 Aligned: 185 Modelled: 185 Confidence: 100.0% Identity: 100% Fold: Cytochrome c oxidase subunit III-like Superfamily: Cytochrome c oxidase subunit III-like Family: Cytochrome c oxidase subunit III-like Phyre2 PDB 1v54 chain C Region: 9 - 203 Aligned: 192 Modelled: 195 Confidence: 100.0% Identity: 21% Fold: Cytochrome c oxidase subunit III-like Superfamily: Cytochrome c oxidase subunit III-like Family: Cytochrome c oxidase subunit III-like Phyre2 PDB 1qle chain C Region: 15 - 202 Aligned: 185 Modelled: 188 Confidence: 100.0% Identity: 25% Fold: Cytochrome c oxidase subunit III-like Superfamily: Cytochrome c oxidase subunit III-like Family: Cytochrome c oxidase subunit III-like Phyre2 PDB 1m56 chain C Region: 15 - 202 Aligned: 185 Modelled: 188 Confidence: 100.0% Identity: 28% Fold: Cytochrome c oxidase subunit III-like Superfamily: Cytochrome c oxidase subunit III-like Family: Cytochrome c oxidase subunit III-like Phyre2 PDB 2knc chain A Region: 150 - 174 Aligned: 25 Modelled: 25 Confidence: 14.3% Identity: 28% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2k1a chain A Region: 150 - 174 Aligned: 25 Modelled: 25 Confidence: 11.8% Identity: 28% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 3cx5 chain C domain 1 Region: 43 - 147 Aligned: 97 Modelled: 105 Confidence: 7.2% Identity: 15% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1jb0 chain I Region: 97 - 116 Aligned: 20 Modelled: 20 Confidence: 6.2% Identity: 35% Fold: Single transmembrane helix Superfamily: Subunit VIII of photosystem I reaction centre, PsaI Family: Subunit VIII of photosystem I reaction centre, PsaI Phyre2 1 d1fftc_ 2 d1v54c_ 3 d1qlec_ 4 d1m56c_ 5 c2kncA_ 6 c2k1aA_ 7 d3cx5c1 8 d1jb0i_

Detailed template information

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

1 d1fftc_ 100.0 100 Fold:Cytochrome c oxidase subunit III-like Superfamily:Cytochrome c oxidase subunit III-like Family:Cytochrome c oxidase subunit III-like 2 d1v54c_ 100.0 21 Fold:Cytochrome c oxidase subunit III-like Superfamily:Cytochrome c oxidase subunit III-like Family:Cytochrome c oxidase subunit III-like 3 d1qlec_ 100.0 25 Fold:Cytochrome c oxidase subunit III-like Superfamily:Cytochrome c oxidase subunit III-like Family:Cytochrome c oxidase subunit III-like 4 d1m56c_ 100.0 28 Fold:Cytochrome c oxidase subunit III-like Superfamily:Cytochrome c oxidase subunit III-like Family:Cytochrome c oxidase subunit III-like 5 c2kncA_ 14.3 28 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 6 c2k1aA_ 11.8 28 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 7 d3cx5c1 7.2 15 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 8 d1jb0i_ 6.2 35 Fold:Single transmembrane helix Superfamily:Subunit VIII of photosystem I reaction centre, PsaI Family:Subunit VIII of photosystem I reaction centre, PsaI

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