Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	V	P	F	L	I	M	L	R	E	G	L	E	A	A	L	I	V	S	L	I	A	S	Y	L	K	R	T	Q	R	G	M	X	D	C	V	M	W	I	G	V	L	L	A	A	A	L	C	L	G	L	G	I	F	I	N	E	T	T
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	E	F	P	Q	K	E	Q	E	L	F	E	G	I	V	A	V	I	A	V	V	I	L	T	W	M	V	F	W	M	R	K	V	S	R	N	V	K	V	Q	L	E	Q	A	V	D	S	A	L	Q	R	G	N	H	H	G	W	A	L	V
Secondary structure
SS confidence
Disorder		?																																																?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		M	M	V	F	F	A	V	A	R	E	G	L	E	S	V	F	F	L	L	A	A	F	Q	Q	D	V	G	I	W	P	P	L	G	A	M	L	G	L	A	T	A	V	V	L	G	F	L	L	Y	W	G	G	I	R	L	N	L	G	A	F
Secondary structure
SS confidence
Disorder																								?		?	?	?	?																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	K	W	T	S	L	F	I	L	F	V	A	A	G	L	A	A	G	A	I	R	A	F	H	E	A	G	L	W	N	H	F	Q	E	I	A	F	D	M	S	A	V	L	S	T	H	S	L	F	G	T	L	M	E	G	I	F	G	Y	Q
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.
Sequence		E	A	P	S	V	S	E	V	A	V	W	F	I	Y	L	I	P	A	L	V	A	F	A	L	P	P	R	A	G	A	T	A	S	R	S	A
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 3jyc chain A Region: 168 - 274 Aligned: 107 Modelled: 107 Confidence: 14.4% Identity: 13% PDB header:metal transport Chain: A: PDB Molecule:inward-rectifier k+ channel kir2.2; PDBTitle: crystal structure of the eukaryotic strong inward-rectifier2 k+ channel kir2.2 at 3.1 angstrom resolution Phyre2 PDB 2knc chain A Region: 150 - 172 Aligned: 23 Modelled: 23 Confidence: 10.9% Identity: 22% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2rdd chain B Region: 245 - 275 Aligned: 31 Modelled: 31 Confidence: 10.0% Identity: 6% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 2rmi chain A Region: 9 - 15 Aligned: 7 Modelled: 7 Confidence: 7.4% Identity: 86% PDB header:neuropeptide Chain: A: PDB Molecule:astressin; PDBTitle: 3d nmr structure of astressin Phyre2 PDB 1cii chain A Region: 176 - 262 Aligned: 82 Modelled: 87 Confidence: 6.8% Identity: 10% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 1d0n chain A domain 5 Region: 89 - 146 Aligned: 46 Modelled: 58 Confidence: 6.7% Identity: 17% Fold: Gelsolin-like Superfamily: Actin depolymerizing proteins Family: Gelsolin-like Phyre2 PDB 2axt chain Z domain 1 Region: 16 - 55 Aligned: 40 Modelled: 40 Confidence: 6.4% Identity: 18% Fold: Transmembrane helix hairpin Superfamily: PsbZ-like Family: PsbZ-like Phyre2 1 c3jycA_ 2 c2kncA_ 3 c2rddB_ 4 c2rmiA_ 5 c1ciiA_ 6 d1d0na5 7 d2axtz1

Detailed template information

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

1 c3jycA_ 14.4 13 PDB header:metal transport Chain: A: PDB Molecule:inward-rectifier k+ channel kir2.2; PDBTitle: crystal structure of the eukaryotic strong inward-rectifier2 k+ channel kir2.2 at 3.1 angstrom resolution 2 c2kncA_ 10.9 22 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 3 c2rddB_ 10.0 6 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 4 c2rmiA_ 7.4 86 PDB header:neuropeptide Chain: A: PDB Molecule:astressin; PDBTitle: 3d nmr structure of astressin 5 c1ciiA_ 6.8 10 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 6 d1d0na5 6.7 17 Fold:Gelsolin-like Superfamily:Actin depolymerizing proteins Family:Gelsolin-like 7 d2axtz1 6.4 18 Fold:Transmembrane helix hairpin Superfamily:PsbZ-like Family:PsbZ-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