[Study of the secondary structure of a single-stranded DNA fragment using self-modification reaction].
Electrophoretic analysis of the products of chemical destruction at modified base residues was used to determine the site-directedness of self-alkylation of the 26-mer DNA fragment pTTGCCTTGAATGGGAAGAGGGTCATT (T26). This fragment possesses a 4-[N-methyl-N-(2-chloroethyl)amino]benzylamido group (CIR-), covalently attached to the 5'-terminal phosphate group both in the presence and in the absence of the oligonucleotide effector (Phn-L)pTGACCCTCp(L-Phn), where Phn is an N-(2-hydroxyethyl)phenazinium residue and L is an ethylenediamine linker. Molecular modeling with the method of molecular mechanics/dynamics (MM/D) was used to investigate the secondary structure of the CIR-T26 conjugate and to interpret the change of the alkylation site upon treatment with CIR-T26 in the presence of an effector.
Bichenkova
E V
EV
Adina-Zada
A
A
Fedorova
O S
OS
D000478:Alkylation; D004277:DNA, Single-Stranded / Q000737:chemistry*; D008958:Models, Molecular; D009690:Nucleic Acid Conformation; D015345:Oligonucleotide Probes
D004277:DNA, Single-Stranded; D015345:Oligonucleotide Probes
Izuchenie vtorichnoĭ struktury odnotsepochechnogo fragmenta DNK s ispol'zovaniem reaktsii samomodifikatsii.