Protein Dynamics Governed by Interfaces of High Polarity and Low Packing Density 英文参考文献.docVIP

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Protein Dynamics Governed by Interfaces of High Polarity and Low Packing Density 英文参考文献.doc

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Protein Dynamics Governed by Interfaces of High Polarity and Low Packing Density 英文参考文献

ProteinDynamicsGovernedbyInterfacesofHigh PolarityandLowPackingDensity VladimirEspinosaAngarica1,2,JavierSancho1,2 * 1DepartamentodeBioqu?′micayBiolog?′aMolecularyCelular,FacultaddeCiencias,UniversidaddeZaragoza,Zaragoza,Spain,2BiocomputationandComplexSystems PhysicsInstitute(BIFI),JointUnitBIFI-IQFR,CSIC,UniversidaddeZaragoza,Zaragoza,Spain Abstract The folding pathway, three-dimensional structure and intrinsic dynamics of proteins are governed by their amino acid sequences.Internalproteinsurfaceswithphysicochemicalpropertiesappropriatetomodulateconformationalfluctuations couldplayimportantrolesinfoldinganddynamics.Weshowherethatproteinscontainburiedinterfacesofhighpolarity andlow packing density, coined as LIPs: Light Interfacesof high Polarity, whose physicochemical properties make them unstable. The structures of well-characterized equilibrium and kinetic folding intermediates indicate that the LIPs of the correspondingnativeproteinsfoldlateandareinvolvedinlocalunfoldingevents.Importantly,LIPscanbeidentifiedusing veryfastanduncomplicatedcomputationalanalysisofproteinthree-dimensionalstructures,whichprovidesaneasywayto delineate the proteinsegments involved in dynamics. Since LIPs canbe retained while the sequences of the interacting segments diverge significantly, proteins could in principle evolve new functional features reusing pre-existing encoded dynamics.Large-scaleidentificationofLIPSmaycontributetounderstandingevolutionaryconstraintsofproteinsandthe wayproteinintrinsicdynamicsareencoded. Citation:AngaricaVE,SanchoJ(2012)ProteinDynamicsGovernedbyInterfacesofHighPolarityandLowPackingDensity.PLoSONE7(10):e48212.doi:10.1371/ journal.pone.0048212 Editor:AnnaTramontano,UniversityofRome,Italy ReceivedAugust13,2012;AcceptedSeptember24,2012;PublishedOctober26,2012 Copyright:?2012Angarica,Sancho.Thisisanopen-accessarticledistributedunderthetermsoftheCreativeCommonsAttributionLicense,whichpermits unrestricteduse,distribution,andreproductioninanymedium,providedtheo