Secondary structure and disorder prediction

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Sequence		M	K	R	S	R	T	E	V	G	R	W	R	M	Q	R	Q	A	S	R	R	K	S	R	W	L	E	G	Q	S	R	R	N	M	R	I	H	S	I	R	K	C	I	L	N	K	Q	R	N	S	L	L	F	A	I	Y	N	I
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 1etf chain B Region: 15 - 28 Aligned: 14 Modelled: 14 Confidence: 30.7% Identity: 64% PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, minimized average structure Phyre2 PDB 1etg chain B Region: 15 - 28 Aligned: 14 Modelled: 14 Confidence: 30.7% Identity: 64% PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, 19 structures Phyre2 PDB 3etj chain A domain 2 Region: 12 - 17 Aligned: 6 Modelled: 6 Confidence: 7.4% Identity: 83% Fold: PreATP-grasp domain Superfamily: PreATP-grasp domain Family: BC N-terminal domain-like Phyre2 PDB 2kzk chain A Region: 44 - 56 Aligned: 13 Modelled: 13 Confidence: 7.2% Identity: 46% PDB header:protein transport Chain: A: PDB Molecule:uncharacterized protein yol083w; PDBTitle: solution structure of alpha-mannosidase binding domain of atg34 Phyre2 PDB 2kzb chain A Region: 44 - 56 Aligned: 13 Modelled: 13 Confidence: 7.1% Identity: 46% PDB header:protein transport Chain: A: PDB Molecule:autophagy-related protein 19; PDBTitle: solution structure of alpha-mannosidase binding domain of atg19 Phyre2 PDB 2plx chain B Region: 38 - 44 Aligned: 7 Modelled: 7 Confidence: 7.0% Identity: 43% PDB header:hydrolase Chain: B: PDB Molecule:peptide inhibitor; PDBTitle: trypsin complexed to a synthetic peptide from veronica hederifolia Phyre2 PDB 2cmy chain B domain 1 Region: 38 - 44 Aligned: 7 Modelled: 7 Confidence: 6.8% Identity: 43% Fold: Toxic hairpin Superfamily: VhTI-like Family: VhTI-like Phyre2 1 c1etfB_ 2 c1etgB_ 3 d3etja2 4 c2kzkA_ 5 c2kzbA_ 6 c2plxB_ 7 d2cmyb1

Detailed template information

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

1 c1etfB_ 30.7 64 PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, minimized average structure 2 c1etgB_ 30.7 64 PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, 19 structures 3 d3etja2 7.4 83 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 4 c2kzkA_ 7.2 46 PDB header:protein transport Chain: A: PDB Molecule:uncharacterized protein yol083w; PDBTitle: solution structure of alpha-mannosidase binding domain of atg34 5 c2kzbA_ 7.1 46 PDB header:protein transport Chain: A: PDB Molecule:autophagy-related protein 19; PDBTitle: solution structure of alpha-mannosidase binding domain of atg19 6 c2plxB_ 7.0 43 PDB header:hydrolase Chain: B: PDB Molecule:peptide inhibitor; PDBTitle: trypsin complexed to a synthetic peptide from veronica hederifolia 7 d2cmyb1 6.8 43 Fold:Toxic hairpin Superfamily:VhTI-like Family:VhTI-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