Protein Regulatory Index

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ProRegIn
Protein Regulatory Index

ProRegIn is based on the regularity in the loop dihedral angles of the amino acids.

Protein has 3 levels of structure: Primary- at sequence level, Secondary- local arrangement of the polypeptide chain and tertiary - the three dimensional arrangement of a protein in space. There are 3 major elements of secondary structure of protein- helix, sheet and loops. Helix and sheet are considered to follow regular pattern in terms of dihedral angles while loops are irregular in nature. ProRegIn exploits the fact that loops are a mixture of helix-like and sheet-like dihedral values and to some extent follow the regular pattern.

ProRegIn classifies all 20 amino acids in a protein into regular and irregular category for both phi and psi. It can be used to separate improbable structures from native-like probable structures. ProRegIn is currently used as one of the filters in Bhageerath methodology.

Instructions to use tool
1) Upload a pdb file (Upload Protein with one chain only) and Click 'Submit' button.
2) Regularity Index for a given protein will be shown in the form of table.


ProRegIn
Input

Input PDB file : (Sample File)



Reference:

L. Thukral, S. R. Shenoy, K. Bhusan and B.Jayaram, "ProRegIn: A regularity index for the selection of native-like tertiary structures of proteins", J. Biosci., 2007, 32, 71-81.
Read Article 
http://www.ias.ac.in/jbiosci/jan2007/71.pdf




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