Hi Ankush, If you want to show the electrostatic potential by coloring the molecular surface in Chimera, please see this recent post for two possible ways: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2012-January/007058.html> See also this tutorial: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/tutorials/surfprop.html> For plotting, you would need to use some other program. Also, it is unclear what would be on the X-axis and Y-axis of this plot, since the potential varies in 3D space. There is not a single potential value per residue or anything like that. For comparing electrostatics of proteins, you might be interested in this web server: <http://pipsa.eml.org/pipsa/> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Jan 13, 2012, at 9:05 AM, Ankush Sharma wrote:
Regards all, i wanted to calculate the calculate the Electrostatics potential associated with a specific part of the protein and differentiate from the other part of protein. How can it Possible . is there any method apart from MD to plot a graph of both to diffrentiate Quantitatively the The Potential Thanks in advance Ankush Sharma