Difference between revisions of "Generating and Displaying an Electostatic Surface"
From Bridges Lab Protocols
Davebridges (Talk | contribs) (Created page with '==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/. T...') |
Davebridges (Talk | contribs) m (→Generate PQR File for the Structure) |
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===Generate PQR File for the Structure=== | ===Generate PQR File for the Structure=== | ||
#Download or generate PDB file. | #Download or generate PDB file. | ||
| − | #Go to the PDB2PQR server at http://pdb2pqr-1.wustl.edu/pdb2pqr/. | + | #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. | + | #Save the pqr file and the APBS input file. |
Revision as of 00:38, 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.
