The Protein Structure Alignment based on Residue and SSEs

摘要：

We present a novel approach for the alignment of proteins based on the C atoms and the SSEs of the Protein Structures. Our Program constructs a smoothing spline according to the point in the axis of the C atoms;we also use SSEs to let the smoothing spline more and more accurate, and then calculate the Curvature and Torsion of the spline. The normalized features of the Curvature and Torsion have been used to build the distance matrix;A Local alignment is made using the Smith-Waterman algorithm. A score is calculated based on the length of the alignment and the RMSD. In a comparison of our method to protein alignments generated by Residue Contexts, CTSS, DALI. and CE. Several structures detected by our method have better RMSD results than by other methods.

关键词： Protein structure Alignment SSEs smoothing spline Smith-Waterman algorithm RMSD

作者: Zhengyuan Ning Jianlin Dai

作者单位: College of Computer and information Fujian Agriculture and Forestry University Fuzhou,China

会议类型: 国际会议

会议名称: 2011 3rd International Conference on Computer and Network Technology(ICCNT 2011)(2011第三届IEEE计算机与网络技术国际会议)

会议地点: 太原

会议语种:英文

页码: 357-360

在线出版日期: 2011-02-26（万方平台首次上网日期，不代表论文的发表时间）