基于SwissPdbViewer和MATLAB对东北虎Sox蛋白三级结构建模及分析.pdfVIP

四川动物 2008年 第27卷 第6期 SichuanJournalofZoology Vo1．27 No．6 2008 M odelingTertiaryStructuresofSoxProtein inPanthera皖grisaltaica Basedon SwissPdbViewerandMATLAB LIANGJun—yi．CHENQi．1ong (1．DepartmentofPhysics，NnajingUniversity，Nanjing210093，China；2．Bio—electronicCen~eofShanghaiUniversity) 3．CollegeofLifeSciences Environment．HuangshanUniversity Abstract：SoxproteinsarecharacterizedbyaconservedhighmobilitygroupHMG—boxdomain，whichisresponsiblefor DNAbindingandbending．Inordertoresearchthemolecularmechanism ofSoxproteininPantheratigrisaltaica，theamino acidsequencesofPtSoxweredownloadedfrom theGenBankdatabaseusingbioinformaticstoolsofMATLAB．Thetertiary structuresofPtSoxproteinsweremodeledusingcomputerprogramsSwissPdbViewerandMATLAB，homologymodeling method，andtheknowntertiarystructureofSox2astemplates．ThethreedimensionalsturcturesofpredictedPtSoxproteins werevisualizedusingVisualizationToolofMATLAB．Theresultsshowed thatthetertiarysturctureofPtSoxappeared to threeoL—helicesandtwoloopregions．ThermostabilityanalysisshowedthattheloopregionsofPtSoxsturctureswererelatively unstablethermodynamically．AnalysisoftheelectrostaticsurfacesshowedtheC—terminalhalfofPtSoxformedanN／Ccavity whereinteractedwithorganicmoleculesorproteinscouldbepossible．Thisobservationsuggestedthatthespatialstructureof Soxwasmorelikelytoregulatetheactivityandfunctionofthisprotein． Keywords：Soxprotein；MATLAB；homoloyg modeling；tertiarysturcture；Pantheratigrisahaica 中图分类号：Q959．838；Q956 文献标识码：A 文章编号 ：1000—7083(2008)06—0997—06 基于SwissPdbViewer和MATLAB对东北虎 Sox蛋白三级结构建模及分析 梁俊毅 ，陈启龙 (1．南京大学物理系，南京210093；2．上海大学电子生物技术研究q-心；3．黄山学院生命与环境科学学院) 摘要：SOX蛋白具有一个与 DNA特异结合的高保守 HMG—box结构域。为研究东北虎 SOX蛋白三级结构的分 子机理 ，利用M