Hi Mohan, can you please provide some more information, like:
* what parameters did you choose on the website * what representation in PyMOL did show the distorted structure * was that a public available PDB structure so that we could try to reproduce your result Does it help if you check "Add/keep chain IDs in the PQR file" with the PDB2PQR Server? If your structure has multiple chains, then PyMOL will show incomplete cartoon representation if the chain ids are missing. You can also try: PyMOL> set retain_order PyMOL> load file.pqr Cheers, Thomas Mohan Pradhan wrote, On 10/02/12 18:36: > Hi > > When I load the pqr file of the structure in PyMOL for creating the > electrostatic surface using APBS, I see the distorted structure. > I have generated this site using the PDB2PQR module > at http://nbcr-222.ucsd.edu/pdb2pqr_1.8/ > Can someone explain why it is so. -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev _______________________________________________ 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