Cooperative interactions in the tandem of oligonucleotide derivatives arranged at complementary target. Quantitative estimates and contribution of the target secondary structure

FEBS Letters

Adeenah-Zadah, Abdussalam¹  Knorre, Dmitri G.¹  Fedorova, Olga S.¹ 

[1] Institute of Bioorganic Chemistry, Siberian Division of Russian Academy of Sciences, Lavrentyev Pr. 8, Novosibirsk 630090, Russian Federation

关键词: Oligonucleotide;    Alkylating derivative;    Effector;    Association constant;   

DOI  :  10.1016/0014-5793(95)00733-P

学科分类：生物化学/生物物理

来源: John Wiley & Sons Ltd.

【 摘 要 】

The intraduplex reaction of the alkylating reagent CIRCH₂NHpd(TTCCCA) (X, CIR is p-(N-2-chloroethyl-N-methylaminophenyl) residue) with the target 26-mer d(TTGCCTTGAATGGGAAGAGGGTCATT) (P) in the presence of effectors was studied. The effectors used were Phn-L-pd(TTCAAGGC)p-L-Phn (E₁) and Phn-L-pd(TGACCCTC)p-L-Phn (E₂), where Phn is N-(2-hydroxyethyl)-phenazinium residue and L is NHCH₂CH₂NH spacer. The dependence of the alkylation extent of the target on the reagent concentration was treated using the equation derived earlier for the two-component system (reagent+target) to calculate association constants of X with P, PE₁, PE₂ and PE₁E₂. The latters were found to be K _xe1 = 6.75 · 10⁵ M⁻¹, K _xe2 = 4.15 · 10⁴ M⁻ andK _xe12 = 5.87 · 10⁶ 10⁶ M⁻¹ as compared with the affinity of X to P K _x = 2.16 · 10⁴ M⁻¹ in the absence of effectors. Taking into account the internal structure of the target, co-operativity parameters describing interactions in the tandem E₁ · X · E₂ arranged at the target were calculated as α ₁ = 16, α ₂ = 10 and α ₁₂ = 139 for the duplexes PXE₁, PXE₂ and PXE₁E₂.

【 授权许可】

Unknown