Structure determination and binding kinetics of a DNA aptamer-argininamide complex.
Structure determination and binding kinetics of a DNA aptamer-argininamide complex.
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DOI：
10.1021/bi9915061
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发表时间：
2000-01
期刊：
影响因子：
2.9
通讯作者：
S. Robertson;K. Harada;A. Frankel;D. Wemmer
中科院分区：
文献类型：
--
作者：
S. Robertson;K. Harada;A. Frankel;D. Wemmer
使用NMR光谱法测定选择用于特异性结合精氨酸的DNA适体的结构。该序列形成发夹环，其中对于结合重要的残基发生在环区域中。烟酰胺的结合诱导一个沃森-克里克和两个非沃森-克里克碱基对的形成，其促进结合口袋的产生。精氨酸的特异性似乎是由精氨酸的胍基末端与磷酸盐之间的接触引起的，原子通过口袋的形状定位。观察到复杂的结合动力学，表明有两种形式的DNA，这具有不同的结合亲和力的缓慢相互转换。这些数据提供了适体对配体的自适应识别过程的信息。
The structure of a DNA aptamer, which was selected for specific binding to arginine, was determined using NMR spectroscopy. The sequence forms a hairpin loop, with residues important for binding occurring in the loop region. Binding of argininamide induces formation of one Watson-Crick and two non-Watson-Crick base pairs, which facilitate generation of a binding pocket. The specificity for arginine seems to arise from contacts between the guanidino end of the arginine and phosphates, with atoms positioned by the shape of the pocket. Complex binding kinetics are observed suggesting that there is a slow interconversion of two forms of the DNA, which have different binding affinities. These data provide information on the process of adaptive recognition of a ligand by an aptamer.