Welcome to Advance Modification Module with Manual Modification

This module provides an option to open any PDB structure in a web based chemical drawing software (Marvin Applet) and user can add any modification in any particular position on the structure and submit it. The submitted initial structure will be subjected to energy minimization by open babel software and minimized structure will be given as output. This service will be useful for incorporating modifications whose force field parameters are not present in the standard force field libraries used in this study. For more information click help
Suggestion: If a user wants to edit any structure in his/her own favorite editor/software (like Pymol etc), he/she can do it and open that structure here in marvin sketch and submit the structure here.

Peptide Structure Manual Modification using Marvin

Note: Chrome browser may have some compatibility issues with the above Marvin applet. This applet is best visualized in Firefox and Safari browsers.
If you are using PEPstrMOD, please cite the following articles:
i) Singh, S., Singh, H., Tuknait, A., Chaudhary, K., Singh, B., Kumaran, S. and Raghava, G.P.S. (2015) PEPstrMOD: structure prediction of peptides containing natural, non-natural and modified residues. Biology Direct 10:73.
ii) Kaur, H., Garg, A. and Raghava, G.P.S. (2007) PEPstr: A de novo method for tertiary structure prediction of small bioactive peptides. Protein Pept Lett. 14:626-30.
Click Here for PEPstrMOD Manual