Molecular design of DNA alkylating pyrrole-imidazole polyamides with longer recognition sequence | Zendy

Masafumi Minoshima | Zendy; Shunta Sasaki | Zendy; Kenichi Shinohara | Zendy; Tatsuhiko Shimizu | Zendy; Toshikazu Bando | Zendy; Hiroshi Sugiyama | Zendy

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Molecular design of DNA alkylating pyrrole-imidazole polyamides with longer recognition sequence

Author(s) -

Masafumi Minoshima,

Shunta Sasaki,

Kenichi Shinohara,

Tatsuhiko Shimizu,

Toshikazu Bando,

Hiroshi Sugiyama

Publication year - 2006

Publication title -

nucleic acids symposium series

Language(s) - English

Resource type - Journals

eISSN - 1746-8272

pISSN - 0261-3166

DOI - 10.1093/nass/nrl082

Subject(s) - dna , alkylation , indole test , linker , sequence (biology) , chemistry , pyrrole , polyamide , base pair , recognition sequence , imidazole , stereochemistry , biochemistry , polymer chemistry , organic chemistry , restriction enzyme , computer science , catalysis , operating system

The sequence-specificity, and DNA alkylating activity of the conjugate 1, which consists of N-methylpyrrole (Py)-N-methylimidazole (Im) polyamides, 1-(chloromethyl)-5-hydroxy-1,2-dihydro-3H-benz[e]indole (seco-CBI) with indole linker, were investigated in the absence or presence of partner Py-Im polyamide 2. High-resolution denaturing polyacrylamide gel electrophoresis showed that the specificity of DNA alkylation by 1 modulated in the presence of partner 2. We found that sequence-specific DNA alkylation by 1 and 2 with 10 base pair (bp) match recognition sequence through heterodimer formation. This result indicates one possibility of DNA alkylation with longer recognition sequence by different two molecules.

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