Thermodynamic analysis of conformational transitions in oligonucleotide complexes in presence of Na(+) and Mg(2+) ions, using 'staggering zipper' model

1 transition) and triple (3-->2 transition) complexes of oligonucleotides dA(N1)with dT(N2) in solutions with Na(+) and Mg(2+) are calculated for the case of oligomer lengths from 10 to 500 nucleotides in the wide range of ion concentrations. The calculated curves of transitions and their differential analogs reflect rather exactly the position and form of experimental curves and describe dependences of transition temperatures on the length of molecules, their concentration, and ionic conditions. Values of the nucleation parameter beta for the systems studied are determined by comparison of the calculated and experimental data obtained in a number of works. The average beta value equal to 10(-3) l/mole is in an agreement with values reported for similar systems earlier. It is shown that disordering of duplex and triplex ends ("end fraying") has an essential influence on the form of melting curves, their asymmetry and the increase of the transition interval. -->

ISSN:	0006-3525
Přístupová URL adresa:	https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8c00124797867f569280567fd58f41c9 https://pubmed.ncbi.nlm.nih.gov/17309076
Rights:	CLOSED
Přírůstkové číslo:	edsair.doi.dedup.....8c00124797867f569280567fd58f41c9
Autor:	Galina O. Gladchenko, Yurii P. Blagoi, Victor Zozulya, Sergey Egupov, Vladimir F. Onishchenko
Rok vydání:	2007
Předmět:	Metal ions in aqueous solution media_common.quotation_subject Biophysics Nucleation Oligonucleotides Ionic bonding Biochemistry Oligomer Asymmetry Ion Biomaterials chemistry.chemical_compound Cations Molecule Nucleotide Magnesium media_common chemistry.chemical_classification Chemistry digestive oral and skin physiology Organic Chemistry Sodium Temperature General Medicine Crystallography Nucleic Acid Conformation Thermodynamics
Zdroj:	Biopolymers. 86(1)
ISSN:	0006-3525
Popis:	Curves of transitions in double (2-->1 transition) and triple (3-->2 transition) complexes of oligonucleotides dA(N1)with dT(N2) in solutions with Na(+) and Mg(2+) are calculated for the case of oligomer lengths from 10 to 500 nucleotides in the wide range of ion concentrations. The calculated curves of transitions and their differential analogs reflect rather exactly the position and form of experimental curves and describe dependences of transition temperatures on the length of molecules, their concentration, and ionic conditions. Values of the nucleation parameter beta for the systems studied are determined by comparison of the calculated and experimental data obtained in a number of works. The average beta value equal to 10(-3) l/mole is in an agreement with values reported for similar systems earlier. It is shown that disordering of duplex and triplex ends ("end fraying") has an essential influence on the form of melting curves, their asymmetry and the increase of the transition interval.
Databáze:	OpenAIRE
Externí odkaz:	https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8c00124797867f569280567fd58f41c9 https://pubmed.ncbi.nlm.nih.gov/17309076 Zobrazit plný text záznamu Plný text