Cembran Lab: Software

MD Simulation Software:

• GROMACS Program
• CHARMM Force Field
• VMD Visualization Program
• PyMol Visualization Program

Useful Links for Protein MD Simulations:

• Protein Data Bank
• ClustalW2 Sequence Alignment
• MolProbity Structure Validation
• PropKa pKa Calculator
• CHARMM GUI Simulation Preparation

Installation Guides:

• Install PyMol on Windows

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