The coupling of structural fluctuations to hydride transfer in dihydrofolate reductase.
The energy barrier for hydride transfer in wild-type G121V and G121S variants of Escherichia coli dihydrofolate reductase (DHFR) fluctuates in a time-dependent manner. This fluctuation may be attributed to structural changes in the protein that modulate the site of chemistry. Despite being far from the active site, mutations at position 121 of DHFR reduce the hydride transfer rate of the enzyme. This occurrence has been suggested to arise from modifications to the conformational ensemble of the protein. We elucidate the effects of the G121S and G121V mutations on the hydride transfer barrier by identifying structural changes in the protein that correlate with lowered barriers. The effect of these structural parameters on the hydride transfer barrier may be rationalized by simple considerations of the geometric constraints of the hydride transfer reaction. Fluctuations of these properties are associated with specific backbone dihedral angles of residues within the Methione-20 (M20) loop. The dihedral angle preferences are mediated by interactions with the region of the enzyme in the vicinity of residue 121 and are translated into distinct ligand conformations. We predict mutations within the M20 loop that may alter the conformational space explored by DHFR. Such mutational changes are anticipated to adjust the hydride transfer efficacy of DHFR by modifying equilibrium distributions of hydride transfer barriers found in the enzyme.
Thorpe
Ian F
IF
Department of Molecular Biology (TPC-06), The Scripps Research Institute, La Jolla, California 92037, USA.
Brooks
Charles L
CL
D000409:Alanine / Q000378:metabolism; D001665:Binding Sites; D003198:Computer Simulation; D004926:Escherichia coli / Q000201:enzymology* / Q000235:genetics; D018698:Glutamic Acid / Q000378:metabolism; D008958:Models, Molecular; D009154:Mutation / Q000235:genetics; D010100:Oxygen / Q000378:metabolism; D017433:Protein Structure, Secondary; D013762:Tetrahydrofolate Dehydrogenase / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*
D018698:Glutamic Acid; D013762:Tetrahydrofolate Dehydrogenase; D000409:Alanine; D010100:Oxygen