作者
Lidija‐Marija Tumir, Ivo Crnolatac, Todor Deligeorgiev, Aleksey Vasilev, Stefka Kaloyanova, Marina Grabar Branilović, Sanja Tomić, Ivo Piantanida
发表日期
2012/3/26
期刊
Chemistry-a European Journal
卷号
18
期号
13
页码范围
3859
简介
Small molecules targeting DNA/RNA often rely on one dominant non-covalent binding mode for their interaction with double stranded (ds) DNA/RNA (eg intercalation, minor or major groove binding, external electrostatic binding). However, the combination of different binding modes as well as additional sterical and structural features controlling three-dimensional recognition drew some attention in the last decade.[1] Mostly, DNA recognition, in nature as well as gene-targeting technology, is generally based on thermodynamically controlled equilibrium binding. Whereby intercalators, in general, slightly prefer GCDNA sequences, while the minor-groove binders show strong preference toward AT-rich sequences.[1] DNA/RNA sequence selectivity of small molecules was targeted by many approaches. The most efficient approach was introduced by Dervan et al, showing fine recognition of the DNA sequence (thus also constitution of AT tracts) by thermodynamically controlled “H-bond based reading” of well designed heterocycle-polyamide molecules.[2] However, the application of this approach is limited by the size of small molecule (to keep it‟ s Mw< 1000) and shorter DNA sequences (10-20 basepairs). Highly selective recognition of long DNA/RNA characterized by specific secondary structure using small molecule still remains challenging task. For instance, very recently it was shown that long homogeneous AT tracts have significant biological role. Namely, some proteins use a higher AT-tract flexibility and stronger negative electrostatic potential (in comparison to GC-sequences) by inserting arginine-rich protein side-arm into the minor groove …
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