Dear all I am confused about the requirement of providing connectivity data in a pdb file to properly render a protein with PyMol. Right now, I am displaying a pdb file not containing any connectivity data but still the protein seems perfectly valid.
My question is: how does PyMol know how to properly display structures when no connectivity is provided (i understand this usually is at the end of the file in the 'CONECT...' section. Can it determine connectivity from the atom-labels, like the residue and the atom-descriptor (e.g ATOM 5 CB VAL A 1 ...)? Related to this: I'm not a specialist in protein dynamics, but i understand, every reasonable force field (AMBER, CHARMM, ...) will require me to provide connectivity, correct? The point is, i see the protein displayed correctly in PyMol, but there is no connectivity in the PDB file. Does this mean the force field computation will also work? Thanks for a statement Martin ------------------------------------------------------------------------------ The Palm PDK Hot Apps Program offers developers who use the Plug-In Development Kit to bring their C/C++ apps to Palm for a share of $1 Million in cash or HP Products. Visit us here for more details: http://p.sf.net/sfu/dev2dev-palm _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
