Document Detail


Modeling nucleic acids.
MedLine Citation:
PMID:  22538125     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Nucleic acids are an important class of biological macromolecules that carry out a variety of cellular roles. For many functions, naturally occurring DNA and RNA molecules need to fold into precise three-dimensional structures. Due to their self-assembling characteristics, nucleic acids have also been widely studied in the field of nanotechnology, and a diverse range of intricate three-dimensional nanostructures have been designed and synthesized. Different physical terms such as base-pairing and stacking interactions, tertiary contacts, electrostatic interactions and entropy all affect nucleic acid folding and structure. Here we review general computational approaches developed to model nucleic acid systems. We focus on four key areas of nucleic acid modeling: molecular representation, potential energy function, degrees of freedom and sampling algorithm. Appropriate choices in each of these key areas in nucleic acid modeling can effectively combine to aid interpretation of experimental data and facilitate prediction of nucleic acid structure.
Authors:
Adelene Y L Sim; Peter Minary; Michael Levitt
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Publication Detail:
Type:  Journal Article; Research Support, N.I.H., Extramural; Review     Date:  2012-04-25
Journal Detail:
Title:  Current opinion in structural biology     Volume:  22     ISSN:  1879-033X     ISO Abbreviation:  Curr. Opin. Struct. Biol.     Publication Date:  2012 Jun 
Date Detail:
Created Date:  2012-06-25     Completed Date:  2012-10-16     Revised Date:  2014-04-14    
Medline Journal Info:
Nlm Unique ID:  9107784     Medline TA:  Curr Opin Struct Biol     Country:  England    
Other Details:
Languages:  eng     Pagination:  273-8     Citation Subset:  IM    
Copyright Information:
Copyright © 2012 Elsevier Ltd. All rights reserved.
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MeSH Terms
Descriptor/Qualifier:
Algorithms
Computational Biology / methods
Models, Molecular*
Nucleic Acid Conformation
Nucleic Acids / chemistry*
Software
Grant Support
ID/Acronym/Agency:
GM041455/GM/NIGMS NIH HHS; GMN063817//PHS HHS; R01 GM041455/GM/NIGMS NIH HHS; R01 GM063817/GM/NIGMS NIH HHS
Chemical
Reg. No./Substance:
0/Nucleic Acids

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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