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57(4),529–545(2005)288IndexSymbolspKa,78Aacceptor,86action,255alaninescanning,111alternatelocations,61altloc,61atomicmassunit(amu),253BB-factors,231blocking,116Boltzmanndistribution,250bonds,31buried,125CC-terminalend,48C-terminus,48calorie,252carbonaceousgroups,50catalysis,181catalyze,181cation-πinteraction,108,111chains,62cis,48codons,132commafreecode,132crystalcontacts,180DDa,253dalton,253datamining,16decoystructures,111dehydron,13,22denature,55dielectric,213dihedral,71dihedralangle,71dipole,35disuldebonds,53disuldebridges,53domain,68donor,86dynamicviscosity,260Eelectronegativityscale,119entanglement,44epidiorthotricforce,13Fferro-electric,149nestructureconstant,256fold,68freeenergy,250frequency,59Ggauche+,73gauche-,73glycosylation,54Hhetatoms,62hotspots,111hydrodynamicradius,139hydrogenbond,12,33,48hydrophobiceect,21,23,50hydrophobicforce,21Iicode,61insertioncode,61cSpringerInternationalPublishingAG2017L.
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Fernandez,AMathematicalApproachtoProteinBiophysics,BiologicalandMedicalPhysics,BiomedicalEngineering,DOI10.
1007/978-3-319-66032-5289IndexKkcal/mole,252kinematicviscosity,260Llipid,137lipophilicity,101logoddsratio,75loop,67Mmolecularclock,258mutant,87NN-terminalend,48N-terminus,48nonpolargroups,50nonredundantPDB(NRPDB),62Oobligateinteractions,103octetrule,8oddsratio,75Ppartitionfunction,250PDB,14percentagedivergence,258phospholipidbilayer,137phosphorylation,54polarity-synonymousmutations,134polarization,214post-translationalmodication,54primarystructure,66proteincomplex,68Qquaternarystructure,68RRamachandranplot,73readingframe,132relativefrequency,105relativepropensity,105resonance,206Ssaltbridge,32,53scalefreenetwork,81secondarystructure,66selfenergy,226shielding,116solventexclusionsurface,103solvent-accessiblesurface,103sphere-accessiblesurface,103Stokesradius,139substrate,181svedberg,253synonymousmutations,134Ttemperaturefactors,231tertiarystructure,68torsion,71transformofthepeptidebond,48trans:rotamers,73Uunder-wrappedhydrogenbonds(UWHB),23VvanderWaalsradius,42viscosity,260Wwrapping,13wrappingofhydrogenbonds,50Yyotta,252290