I want to do a sampling(partial) of dihedral angles space for a given protein using Xplor-NIH. I am totally new to it and am not familiar with NMR terminologies [ I don't have to use them, atleast for now ]. I understand that, to Xplor, one can just feed a dihedral constraints file and an extended initial structure and do a SA to reach somewhere. I just want to do this (which sounds simple) but getting started with Xplor doesn't seem to be easy :-( . I have some MD experience and am familiar with topology , parameters file, energy minimization etc., yet even with the good examples in the tutorials directory, without much NMR knowledge I am not able to achieve an understanding to be able to do a rather simple thing I want with Xplor. Please help. Is there any flowchart describing the process of generating a structure from a sequence using Xplor [ I wasn't able to find one ]. Simply, with the protG example from the eginput directory, how do i use Xplor to randomly sample the dihedrals space. [just for the phi and psi ] using a constraint of + or - 20 deg taken from the solved, native PDB structure and with no other constraints). Thanks in advance, Sivar
--------------------------------- Never miss a thing. Make Yahoo your homepage. -------------- next part -------------- An HTML attachment was scrubbed... URL: http://dcb.cit.nih.gov/pipermail/xplor-nih/attachments/20080317/ae7b40d9/attachment.html
