Hybridization of Antisense Oligonucleotides with ?-Sarcin Loop Region of Escherichia coli 23S rRNA

Autor:	Vladislav A. Petyuk, Marina A. Zenkova, Valentin V. Vlassov, Roman N. Serikov
Rok vydání:	2005
Předmět:	23S ribosomal RNA Stereochemistry Chemistry Oligonucleotide Base pair medicine Nucleic acid RNA General Medicine Nucleic acid structure medicine.disease_cause Heteroduplex formation Escherichia coli
Zdroj:	ChemInform. 36
ISSN:	1522-2667 0931-7597
DOI:	10.1002/chin.200505210
Popis:	Binding of complementary oligonucleotides (ONs) with α‐sarcin loop region (2638–2682) of Escherichia coli 23S rRNA was investigated. Four of the tested pentadecanucleotides efficiently bound to target sequences with association rate and equilibrium constants ∼ 103 M− 1s− 1 and 107 M− 1, respectively. ON S5 (CGAGAGGACCGGAGU) complementary to the sequence 2658–2672 displayed the highest affinity to the target. Activation energy for binding of ON S5 was measured to be 11 kcal/mol; this value corresponds to ∼ 10% of the calculated enthalpy of the local RNA structure unfolding in the presence of this oligonucleotide. The activation energy value is evidence for the heteroduplex formation to occur via strand displacement pathway; the initiation of heteroduplex formation requires disruption of 1–2 base pairs in RNA hairpin.
Databáze:	OpenAIRE
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