一种利用圆二色光谱和吸收光谱估算RNA最近邻碱基对含量的方法。

A method for estimating the nearest neighbor base-pair content of RNAs using CD and absorption spectroscopy.

作者信息

Johnson K H, Gray D M

机构信息

Program in Molecular and Cell Biology, University of Texas at Dallas, Richardson 75083-0688.

出版信息

Biopolymers. 1991 Mar;31(4):373-84. doi: 10.1002/bip.360310403.

DOI:10.1002/bip.360310403

PMID:1713796

Abstract

CD and absorption spectra are sensitive to the secondary structure of RNAs. By fitting the spectra contained in our basis set to the CD and absorption spectra of an RNA of known sequence, we could determine the fractions of base pairs, the fractions of each of the nearest neighbor base pairs, and the fractions of the single-stranded nucleotides in that RNA. The basis set included 58 CD and 58 absorption spectra. The fitting was done with a guided selection routine. The estimated error was about 0.05 for predicting the fractions of the nearest neighbor base pairs, 0.06 for predicting the fractions of A.U, G.C, and G.U base pairs, and 0.04 for predicting the fractions of the single-stranded nucleotides.

摘要

圆二色光谱（CD）和吸收光谱对RNA的二级结构敏感。通过将我们基集中包含的光谱与已知序列RNA的CD光谱和吸收光谱进行拟合，我们可以确定碱基对的比例、每种最近邻碱基对的比例以及该RNA中单链核苷酸的比例。基集包括58个CD光谱和58个吸收光谱。拟合是通过一个引导选择程序完成的。预测最近邻碱基对比例的估计误差约为0.05，预测A.U、G.C和G.U碱基对比例的估计误差为0.06，预测单链核苷酸比例的估计误差为0.04。