蛋白质生信分析.doc

蛋白质生物信息分析 基本性质分析: /protparam/ 参考文献: Gasteiger E., Hoogland C., Gattiker A., Duvaud S., Wilkins M.R., Appel R.D., Bairoch A.;Protein Identification and Analysis Tools on the ExPASy Server;(In) John M. Walker (ed): The Proteomics Protocols Handbook, Humana Press (2005). pp. 571-607 翻译后修饰： 信号肽预测http://www.cbs.dtu.dk/services/SignalP-3.0/ 残基磷酸化预测：http://www.cbs.dtu.dk/services/NetPhos/ 跨膜结构预测：http://www.cbs.dtu.dk/services/TMHMM-2.0/ http://bp.nuap.nagoya-u.ac.jp/sosui/ http://www.sbc.su.se/~miklos/DAS 亚细胞定位： http://www.cbs.dtu.dk/services/TargetP/ http://psort.hgc.jp/ 1一级结构分析：/protscale/ 1二级结构分析：http://npsa-pbil.ibcp.fr/cgi-bin/npsa_automat.pl?page=/NPSA/npsa_sopma.html Significant improvement in protein secondary structure prediction by consensus prediction from multiple alignments., Cabios (1995) 11, 681-684 Network Protein Sequence AnalysisTIBS 2000 March Vol. 25, No 3 [291]:147-150 1二级结构预测：http://www.cbs.dtu.dk/services/CPHmodels/ CPHmodels-3.0 - Remote homology modeling using structure guided sequence profilesNielsen M., Lundegaard C., Lund O., Petersen TNNucleic Acids Research, 2010, Vol. 38, doi:10.1093/nar/gkq535View the abstract. CPHmodels 2.0: X3M a Computer Program to Extract 3D Models.O. Lund, M. Nielsen, C. Lundegaard, P. WorningAbstract at the CASP5 conferenceA102, 2002. 三级结构： http://geno3d-pbil.ibcp.fr/ /workspace/index.php?func=modelling_simple1 参考文献： Bulfer, S.L., Scott, E.M., Couture, J.F., Pillus, L., Trievel, R.C. Crystal structure and functional analysis of homocitrate synthase, an essential enzyme in lysine biosynthesis. (2009) J.Biol.Chem.284: 35769-35780 Benkert P, Biasini M, Schwede T. (2011). Toward the estimation of the absolute quality of individual protein structure models. Bioinformatics, 27(3):343-50. Arnold K., Bordoli L., Kopp J., and Schwede T. (2006). The SWISS-MODEL Workspace: A web-based environment for protein structure homology modeling. Bioinformatics, 22,195-201