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.
CITATION STYLE
Miao, Z., Cao, Y., & Jiang, T. (2014). Modeling of protein side-chain conformations with RASP. Methods in Molecular Biology, 1137, 43–53. https://doi.org/10.1007/978-1-4939-0366-5_4
Mendeley helps you to discover research relevant for your work.