Theoretical models of DNA flexibility
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61388963%3A_____%2F13%3A00428591" target="_blank" >RIV/61388963:_____/13:00428591 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.1002/wcms.1144" target="_blank" >http://dx.doi.org/10.1002/wcms.1144</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1002/wcms.1144" target="_blank" >10.1002/wcms.1144</a>
Alternative languages
Result language
angličtina
Original language name
Theoretical models of DNA flexibility
Original language description
DNA sequence-dependent three-dimensional structure and mechanical deformability play a large role in biological processes such as protein-DNA interactions, nucleosome positioning, promoter identification, and drug-DNA recognition. On the important scaleof 10-100 base pairs, models where DNA bases are represented by interacting rigid bodies have proved useful. We focus on a recently proposed rigid base model with nonlocal, harmonic interaction energy. We discuss the choice of internal coordinates and amethod to obtain model parameters from coordinate fluctuations. Parameter transformation upon change of reference strand, coordinate constraints, and models with reduced number of degrees of freedom are described. Relation to traditional local harmonic models is clarified. We outline recent attempts to include anharmonic effects. A rigid base model of a DNA oligomer containing A-tract is presented as an example. Perspectives of model development and application are discussed.
Czech name
—
Czech description
—
Classification
Type
J<sub>x</sub> - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)
CEP classification
CF - Physical chemistry and theoretical chemistry
OECD FORD branch
—
Result continuities
Project
—
Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2013
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Wiley Interdisciplinary Reviews - Computational Molecular Science
ISSN
1759-0876
e-ISSN
—
Volume of the periodical
3
Issue of the periodical within the volume
4
Country of publishing house
US - UNITED STATES
Number of pages
9
Pages from-to
355-363
UT code for WoS article
000334577900003
EID of the result in the Scopus database
—