The protein structure optimizer minimizes the energy of the protein structure using a combination of steepest descent and conjugate gradient minimization algorithms. The software uses Cornell et al, 1995 Force Field equation.

Instructions :

1. Select a PDB file using the browse button. ( the file should strictly conform to the PDB format )

2. Choose the desired algorithm and the respective step size. ( to neglect any of the two algorithms specify zero as the step size against it )

3. Specify the dielectric constant.

4. Click the submit button to get the results and the minimized structure.

Please note :

• The PDB file should not have any missing residues.

• The terminal atoms should be present.