Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	N	G	W	H	E	W	P	L	V	I	F	T	V	L	G	Q	C	V	V	G	A	L	I	V	S	G	I	G	W	F	A	A	K	N	D	A	D	R	Q	R	I	V	R	G	M	F	F	L	W	L	L	M	G	V	G	F	I	A
Secondary structure
SS confidence
Disorder		?	?	?	?																													?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	V	M	H	L	G	S	P	L	R	A	F	N	S	L	N	R	I	G	A	S	G	L	S	N	E	I	A	A	G	S	I	F	F	A	V	G	G	L	W	W	L	V	A	V	I	G	K	M	P	Q	A	L	G	K	L	W	L	L	F
Secondary structure
SS confidence
Disorder																			?	?	?	?																											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	M	A	L	G	V	I	F	V	W	M	M	T	C	V	Y	Q	I	D	T	V	P	T	W	H	N	G	Y	T	T	L	A	F	F	L	T	V	L	L	S	G	P	I	L	A	A	A	I	L	R	A	A	R	V	T	F	N	T	T	P
Secondary structure
SS confidence
Disorder																		?	?																																		?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	A	I	I	S	V	L	A	L	I	A	C	A	G	V	I	V	L	Q	G	L	S	L	A	S	I	H	S	S	V	Q	Q	A	S	A	L	V	P	D	Y	A	S	L	Q	V	W	R	V	V	L	L	C	A	G	L	G	C	W	L	C
Secondary structure
SS confidence
Disorder																								?	?	?	?	?	?			?							?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.
Sequence		P	L	I	R	R	R	E	P	H	V	A	G	L	I	L	G	L	I	L	I	L	G	G	E	M	I	G	R	V	L	F	Y	G	L	H	M	T	V	G	M	A	I	A	G
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 2vpz chain G Region: 2 - 270 Aligned: 230 Modelled: 254 Confidence: 100.0% Identity: 14% PDB header:oxidoreductase Chain: G: PDB Molecule:hypothetical membrane spanning protein; PDBTitle: polysulfide reductase native structure Phyre2 PDB 2amn chain A Region: 8 - 18 Aligned: 11 Modelled: 11 Confidence: 15.2% Identity: 64% PDB header:antimicrobial protein Chain: A: PDB Molecule:cathelicidin; PDBTitle: solution structure of fowlicidin-1, a novel cathelicidin2 antimicrobial peptide from chicken Phyre2 PDB 3mk7 chain K Region: 37 - 266 Aligned: 230 Modelled: 230 Confidence: 7.8% Identity: 9% PDB header:oxidoreductase Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 1 c2vpzG_ 2 c2amnA_ 3 c3mk7K_

Detailed template information

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

1 c2vpzG_ 100.0 14 PDB header:oxidoreductase Chain: G: PDB Molecule:hypothetical membrane spanning protein; PDBTitle: polysulfide reductase native structure 2 c2amnA_ 15.2 64 PDB header:antimicrobial protein Chain: A: PDB Molecule:cathelicidin; PDBTitle: solution structure of fowlicidin-1, a novel cathelicidin2 antimicrobial peptide from chicken 3 c3mk7K_ 7.8 9 PDB header:oxidoreductase Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n; PDBTitle: the structure of cbb3 cytochrome oxidase

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