The use of interatomic contact areas to quantify discrepancies between RNA 3D models and reference structures.

ABSTRACT: Growing interest in computational prediction of ribonucleic acid (RNA) three-dimensional structure has highlighted the need for reliable and meaningful methods to compare models and experimental structures. We present a structure superposition-free method to quantify both the local and global accuracy of RNA structural models with respect to the reference structure. The method, initially developed for proteins and here extended to RNA, closely reflects physical interactions, has a simple definition, a fixed range of values and no arbitrary parameters. It is based on the correspondence of respective contact areas between nucleotides or their components (base or backbone). The better is the agreement between respective contact areas in a model and the reference structure, the more accurate t

SUBMITTER: Olechnovic K 

PROVIDER: S-EPMC4027170 | biostudies-literature | 2014 May

REPOSITORIES: biostudies-literature