Difference between revisions of "Generating and Displaying an Electostatic Surface"
From Bridges Lab Protocols
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#Go to the PDB2PQR server at http://pdb2pqr-1.wustl.edu/pdb2pqr/. The default settings (AMBER forcefield, internal naming scheme), are ok. Check off the prepare APBS input file | #Go to the PDB2PQR server at http://pdb2pqr-1.wustl.edu/pdb2pqr/. The default settings (AMBER forcefield, internal naming scheme), are ok. Check off the prepare APBS input file | ||
#Save the pqr file and the APBS input file. | #Save the pqr file and the APBS input file. | ||
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| + | [[Category: Structures]] | ||
| + | [[Category: PyMol]] | ||
| + | [[Category: Bioinformatics]] | ||
Revision as of 00:39, 10 October 2009
Programs Required
- Pymol
- APBS
Generate PQR File for the Structure
- Download or generate PDB file.
- Go to the PDB2PQR server at http://pdb2pqr-1.wustl.edu/pdb2pqr/. The default settings (AMBER forcefield, internal naming scheme), are ok. Check off the prepare APBS input file
- Save the pqr file and the APBS input file.
