Improved nearest-neighbor parameters for predicting DNA duplex stability
Improved nearest-neighbor parameters for predicting DNA duplex stability
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DOI：
10.1021/bi951907q
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发表时间：
1996-03-19
期刊：
影响因子：
2.9
通讯作者：
Seneviratne, A
中科院分区：
文献类型：
--
作者：
SantaLucia, J;Allawi, HT;Seneviratne, A
从23种寡核苷酸的UV吸光度与温度曲线确定热力学数据。将这些数据与21个序列的文献数据相结合，以获得10个沃森-克里克最近邻的改进参数。在37 ° C下观察到的最近邻稳定性的趋势是GC > CG > GG > GA近似于GT近似于CA > CT > AA > AT > TA（其中对于每个最近邻仅显示顶部链）。这种趋势表明，序列和碱基组成是DNA双链体稳定性的重要决定因素。平均而言，改进后的参数分别在4%、7%、8%和2 ℃范围内预测Δ G度（37）、Δ H度、Δ S度和T-M。优化参数用于预测溶解在1 M NaCl中的寡核苷酸。
Thermodynamic data were determined from UV absorbance vs temperature profiles of 23 oligonucleotides. These data were combined with data from the literature for 21 sequences to derive improved parameters for the 10 Watson-Crick nearest neighbors. The observed trend in nearest-neighbor stabilities at 37 degrees C is GC > CG > GG > GA approximate to GT approximate to CA > CT > AA > AT > TA (where only the top strand is shown for each nearest neighbor). This trend suggests that both sequence and base composition are important determinants of DNA duplex stability. On average, the improved parameters predict Delta G degrees(37), Delta H degrees, Delta S degrees, and T-M within 4%, 7%, 8%, and 2 degrees C, respectively. The parameters are optimized for the prediction of oligonucleotides dissolved in 1 M NaCl.