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courses:public:vmd [2016/06/21 09:42] stank [Visualization of electrostatic potentials] |
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| * Start VMD again and use the aligned Proteins from the previous section (load the previously saved coordinates). | * Start VMD again and use the aligned Proteins from the previous section (load the previously saved coordinates). | ||
| The proteins should show up as aligned entities. | The proteins should show up as aligned entities. | ||
| - | * Go to the PDB2PQR webserver: [[http://nbcr-222.ucsd.edu/pdb2pqr_2.1.1/]] | + | * Go to the PDB2PQR webserver: http://nbcr-222.ucsd.edu/pdb2pqr_2.1.1/ |
| * Upload one of the aligned coordinate files. | * Upload one of the aligned coordinate files. | ||
| Choose the force field (AMBER) and naming scheme (AMBER), and click ’Submit’. | Choose the force field (AMBER) and naming scheme (AMBER), and click ’Submit’. | ||
