title: Modeling of protein side-chain conformations with RASP.
abstract: Modeling of side-chain conformations on a fixed protein backbone, also called side-chain packing, plays an important role in protein structure prediction, protein design, molecular docking, and functional analysis. RASP, or RApid Side-chain Predictor, is a recently developed program that can model protein side-chain conformations with both high accuracy and high speed. Moreover, it can generate structures with few atomic clashes. This chapter first provides a brief introduction to the principle and performances of the RASP package. Then details on how to use RASP programs to predict protein side-chain conformations are elaborated. Finally, it describes case studies for structure refinement in homology modeling and residue substitution.
authors.affiliation: Key Lab of Protein and Peptide Pharmaceuticals, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.
authors.forename: Zhichao
authors.initials: Z
authors.lastname: Miao
authors.forename: Yang
authors.initials: Y
authors.lastname: Cao
authors.forename: Taijiao
authors.initials: T
authors.lastname: Jiang
mesh_terms: D008958:Models, Molecular; D008968:Molecular Conformation; D011506:Proteins / Q000737:chemistry*; D012984:Software; D064878:Web Browser
chemical_list: D011506:Proteins