Advances in RNA 3D Structure Modeling Using Experimental Data

Frontiers in Genetics
Bing LiZhichao Miao

Abstract

RNA is a unique bio-macromolecule that can both record genetic information and perform biological functions in a variety of molecular processes, including transcription, splicing, translation, and even regulating protein function. RNAs adopt specific three-dimensional conformations to enable their functions. Experimental determination of high-resolution RNA structures using x-ray crystallography is both laborious and demands expertise, thus, hindering our comprehension of RNA structural biology. The computational modeling of RNA structure was a milestone in the birth of bioinformatics. Although computational modeling has been greatly improved over the last decade showing many successful cases, the accuracy of such computational modeling is not only length-dependent but also varies according to the complexity of the structure. To increase credibility, various experimental data were integrated into computational modeling. In this review, we summarize the experiments that can be integrated into RNA structure modeling as well as the computational methods based on these experimental data. We also demonstrate how computational modeling can help the experimental determination of RNA structure. We highlight the recent advances in compu...Continue Reading

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Citations

Mar 22, 2021·The Journal of Biological Chemistry·Eric Westhof, Neocles B Leontis
May 8, 2021·Accounts of Chemical Research·Kevin M Weeks
Jun 15, 2021·Biochemistry·Thomas W ChristyKevin M Weeks

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Methods Mentioned

BETA
x-ray
electron microscopy
electrophoresis
AFM
NMR
x-ray crystallography
Atomic
atomic force microscopy
Nuclear magnetic resonance
Fluorescence resonance

Software Mentioned

MC FRABASE
ModeRNA
RNAsc
DRRAFTER
MaPseq
RNAComposer
sym
CANDID
DMS
seq

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