Designing coarse grained-and atom based-potentials for protein-protein docking

  title={Designing coarse grained-and atom based-potentials for protein-protein docking},
  author={Dror Tobi},
  booktitle={BMC Structural Biology},
Protein-protein docking is a challenging computational problem in functional genomics, particularly when one or both proteins undergo conformational change(s) upon binding. The major challenge is to define a scoring function soft enough to tolerate these changes and specific enough to distinguish between near-native and "misdocked" conformations. Using a linear programming (LP) technique, we developed two types of potentials: (i) Side chain-based and (ii) Heavy atom-based. To achieve this we… CONTINUE READING
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