| Determining the folding and unfolding rate constants of nucleic acids by biosensor. Application to telomere G-quadruplex. | |
| | |
MedLine Citation:
|
PMID: 15479079 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
|
Nucleic acid molecules may fold into secondary structures, and the formation of such structures is involved in many biological processes and technical applications. The folding and unfolding rate constants define the kinetics of conformation interconversion and the stability of these structures and is important in realizing their functions. We developed a method to determine these kinetic parameters using an optical biosensor based on surface plasmon resonance. The folding and unfolding of a nucleic acid is coupled with a hybridization reaction by immobilization of the target nucleic acid on a sensor chip surface and injection of a complementary probe nucleic acid over the sensor chip surface. By monitoring the time course of duplex formation, both the folding and unfolding rate constants for the target nucleic acid and the association and dissociation rate constants for the target-probe duplex can all be derived from the same measurement. We applied this method to determine the folding and unfolding rate constants of the G-quadruplex of human telomere sequence (TTAGGG)(4) and its association and dissociation rate constants with the complementary strand (CCCTAA)(4). The results show that both the folding and unfolding occur on the time scale of minutes at physiological concentration of K(+). We speculate that this property might be important for telomere elongation. A complete set of the kinetic parameters for both of the structures allows us to study the competition between the formation of the quadruplex and the duplex. Calculations indicate that the formation of both the quadruplex and the duplex is strand concentration-dependent, and the quadruplex can be efficiently formed at low strand concentration. This property may provide the basis for the formation of the quadruplex in vivo in the presence of a complementary strand. |
| | |
Authors:
|
Yong Zhao; Zhong-yuan Kan; Zhi-xiong Zeng; Yu-hua Hao; Hua Chen; Zheng Tan |
Related Documents
:
|
20857369 - A microarray-based method to perform nucleic acid selections. 2425659 - Nucleic acid quantitation by continuous flow fluorometry. 1580579 - Detection of microbial nucleic acids for diagnostic purposes. 21261669 - Review article: methods of measuring gastric acid secretion. 18178349 - Establishing chitosan coated plga nanosphere platform loaded with wide variety of nucle... 17437149 - A stochastic model of nonenzymatic nucleic acid replication: "elongators" sequester rep... 3036149 - Preparation of spin-labelled sulfatides for epr studies on model membranes. 3132609 - Role of arachidonic acid metabolism in the mitogenic response of balb/c 3t3 fibroblasts... 317899 - Inhibition of thymidylate synthetase of the human lymphocytes. |
Publication Detail:
|
Type: Journal Article; Research Support, Non-U.S. Gov't |
Journal Detail:
|
Title: Journal of the American Chemical Society Volume: 126 ISSN: 0002-7863 ISO Abbreviation: J. Am. Chem. Soc. Publication Date: 2004 Oct |
Date Detail:
|
Created Date: 2004-10-13 Completed Date: 2005-04-19 Revised Date: 2008-11-21 |
Medline Journal Info:
|
Nlm Unique ID: 7503056 Medline TA: J Am Chem Soc Country: United States |
Other Details:
|
Languages: eng Pagination: 13255-64 Citation Subset: IM |
Affiliation:
|
Laboratory of Biochemistry and Biophysics, College of Life Sciences, Wuhan University, PR China. |
Export Citation:
|
APA/MLA Format Download EndNote Download BibTex |
| MeSH Terms | |
Descriptor/Qualifier:
|
Biosensing Techniques
/
methods* DNA / chemistry* G-Quadruplexes Guanine / chemistry* Humans Kinetics Mathematical Computing Nucleic Acid Conformation* Nucleic Acid Hybridization Oligonucleotides / chemistry Optics and Photonics Surface Plasmon Resonance / methods Telomere / chemistry* |
| Chemical | |
Reg. No./Substance:
|
0/Oligonucleotides; 73-40-5/Guanine; 9007-49-2/DNA |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
Previous Document: Genetic screens and selections for small molecules based on a synthetic riboswitch that activates pr...
Next Document: Kinetic and regiospecific interrogation of covalent intermediates in the nonribosomal peptide synthe...