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
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