Protein side-chain conformation: a systematic variation of chi 1 mean values with resolution - a consequence of multiple rotameric states?
A systematic variation with resolution of the mean values of the gauche-, trans and gauche+ chi1 rotamers in protein structures determined by X-ray crystallography has been observed. Further analysis revealed that these correlations differ considerably between residue types, being highly significant for some residue types (e.g. Ser, Thr, Leu, Lys) and absent for others (e.g. aromatics). For the individual residue types which exhibited the trend most strongly, these changes were accompanied by corresponding systematic variations in the percentage relative populations in the three energy wells. Examination of a uniformly sized subset of monomers showed that this effect, while attenuated, was still present, and was thus not entirely a consequence of the change in size and surface area which also correlates with resolution. An analysis of B values in the disfavoured high-energy barrier region between the rotameric wells showed a pronounced tendency towards larger than average values. As a plausible hypothesis, it is suggested here that these observations can be accounted for by the presence of multiple rotameric states. The averaged electron density produced by dual occupancy at low resolution giving an averaged conformation is resolved at high resolution into its individual components.
MacArthur
M W
MW
Biomolecular Structure and Modelling Unit, Department of Biochemistry and Molecular Biology, University College, London WC1E 6BT, England. mac@bsm.bioc.ucl.ac.uk
Thornton
J M
JM
D001216:Asparagine / Q000737:chemistry; D001224:Aspartic Acid / Q000737:chemistry; D018360:Crystallography, X-Ray / Q000379:methods*; D003545:Cysteine / Q000737:chemistry; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D012399:Rotation; D012995:Solubility; D012997:Solvents
D011506:Proteins; D012997:Solvents; D001224:Aspartic Acid; D001216:Asparagine; D003545:Cysteine