Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	P	P	L	S	P	G	S	R	V	L	I	A	L	I	R	V	Y	Q	R	L	I	S	P	L	L	G	P	H	C	R	F	T	P	T	C	S	S	Y	G	I	E	A	L	R	R	F	G	V	I	K	G	S	W	L	T	V	K	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.
Sequence		V	L	K	C	H	P	L	H	P	G	G	D	D	P	V	P	P	G	P	F	D	T	R	E	H
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 3kw0 chain D Region: 37 - 50 Aligned: 14 Modelled: 14 Confidence: 13.0% Identity: 36% PDB header:hydrolase Chain: D: PDB Molecule:cysteine peptidase; PDBTitle: crystal structure of cysteine peptidase (np_982244.1) from bacillus2 cereus atcc 10987 at 2.50 a resolution Phyre2 PDB 1shy chain B domain 2 Region: 28 - 39 Aligned: 12 Modelled: 12 Confidence: 8.8% Identity: 42% Fold: Trefoil/Plexin domain-like Superfamily: Plexin repeat Family: Plexin repeat Phyre2 PDB 1q68 chain A Region: 20 - 38 Aligned: 19 Modelled: 19 Confidence: 8.4% Identity: 47% PDB header:membrane protein/transferase Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: solution structure of t-cell surface glycoprotein cd4 and2 proto-oncogene tyrosine-protein kinase lck fragments Phyre2 1 c3kw0D_ 2 d1shyb2 3 c1q68A_

Detailed template information

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

1 c3kw0D_ 13.0 36 PDB header:hydrolase Chain: D: PDB Molecule:cysteine peptidase; PDBTitle: crystal structure of cysteine peptidase (np_982244.1) from bacillus2 cereus atcc 10987 at 2.50 a resolution 2 d1shyb2 8.8 42 Fold:Trefoil/Plexin domain-like Superfamily:Plexin repeat Family:Plexin repeat 3 c1q68A_ 8.4 47 PDB header:membrane protein/transferase Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: solution structure of t-cell surface glycoprotein cd4 and2 proto-oncogene tyrosine-protein kinase lck fragments

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