Local Structure Comparison of Proteins
作者： Jun Huan , Jan Prins , Wei Wang , None
DOI: 10.1016/S0065-2458(06)68005-4
关键词:
摘要: Abstract Protein local structure comparison aims to recognize structural similarities between parts of proteins. It is an active topic in bioinformatics research, integrating computer science concepts computational geometry and graph theory with empirical observations physical principles from biochemistry. has important biological applications, including protein function prediction. In this chapter, we provide introduction the problem challenges applications. Current approaches are reviewed. Particular consideration given discovery common a group related We present new algorithm for that uses graph-based representation finds recurring subgraphs among graphs.
sci-hub.se 参考文章(110)
Matthew H.J. Cordes, Robert T. Sauer, Tolerance of a protein to multiple polar-to-hydrophobic surface substitutions. Protein Science. ,vol. 8, pp. 318- 325 ,(2008) , 10.1110/PS.8.2.318
Zhulun Wang, Gérard Benoit, Jinsong Liu, Srividya Prasad, Piia Aarnisalo, Xiaohong Liu, Haoda Xu, Nigel P. C. Walker, Thomas Perlmann, Structure and function of Nurr1 identifies a class of ligand-independent nuclear receptors. Nature. ,vol. 423, pp. 555- 560 ,(2003) , 10.1038/NATURE01645
Gisbert Schneider, Uli Fechner, Advances in the prediction of protein targeting signals. Proteomics. ,vol. 4, pp. 1571- 1580 ,(2004) , 10.1002/PMIC.200300786
Elaine C. Meng, Benjamin J. Polacco, Patricia C. Babbitt, Superfamily active site templates. Proteins. ,vol. 55, pp. 962- 976 ,(2004) , 10.1002/PROT.20099
Alexandra Shulman-Peleg, Ruth Nussinov, Haim J. Wolfson, Recognition of functional sites in protein structures. Journal of Molecular Biology. ,vol. 339, pp. 607- 633 ,(2004) , 10.1016/J.JMB.2004.04.012
Ruedi Aebersold, Matthias Mann, Mass spectrometry-based proteomics Nature. ,vol. 422, pp. 198- 207 ,(2003) , 10.1038/NATURE01511
L. Holm, C. Sander, Mapping the Protein Universe Science. ,vol. 273, pp. 595- 602 ,(1996) , 10.1126/SCIENCE.273.5275.595
Eric Phizicky, Philippe I. H. Bastiaens, Heng Zhu, Michael Snyder, Stanley Fields, Protein analysis on a proteomic scale. Nature. ,vol. 422, pp. 208- 215 ,(2003) , 10.1038/NATURE01512
Mohammed J. Zaki, Efficiently mining frequent trees in a forest Proceedings of the eighth ACM SIGKDD international conference on Knowledge discovery and data mining - KDD '02. pp. 71- 80 ,(2002) , 10.1145/775047.775058
Inge Jonassen, Ingvar Eidhammer, William R. Taylor, Discovery of local packing motifs in protein structures Proteins: Structure, Function, and Genetics. ,vol. 34, pp. 206- 219 ,(1999) , 10.1002/(SICI)1097-0134(19990201)34:2<206::AID-PROT6>3.0.CO;2-N