SimRNAweb: a web server for RNA 3D structure modeling with optional restraints.

ABSTRACT: RNA function in many biological processes depends on the formation of three-dimensional (3D) structures. However, RNA structure is difficult to determine experimentally, which has prompted the development of predictive computational methods. Here, we introduce a user-friendly online interface for modeling RNA 3D structures using SimRNA, a method that uses a coarse-grained representation of RNA molecules, utilizes the Monte Carlo method to sample the conformational space, and relies on a statistical potential to describe the interactions in the folding process. SimRNAweb makes SimRNA accessible to users who do not normally use high performance computational facilities or are unfamiliar with using the command line tools. The simplest input consists of an RNA sequence to fold RNA de novo. Alt

SUBMITTER: Magnus M 

PROVIDER: S-EPMC4987879 | biostudies-literature | 2016 Jul

REPOSITORIES: biostudies-literature