Effect of mutation on enzyme motion in dihydrofolate reductase.
Hybrid quantum-classical molecular dynamics simulations of a mutant Escherichia coli dihydrofolate reductase enzyme are presented. Although residue 121 is on the exterior of the enzyme, experimental studies have shown that the mutation of Gly-121 to valine reduces the rate of hydride transfer by a factor of 163. The simulations indicate that the decrease in the hydride transfer rate for the G121V mutant is due to an increase in the free energy barrier. The calculated free energy barrier is higher for the mutant than for the wild-type enzyme by an amount that is consistent with the experimentally observed rate reduction. The calculated transmission coefficients are comparable for the wild-type and mutant enzymes. The simulations suggest that this mutation may interrupt a network of coupled promoting motions proposed to play an important role in DHFR catalysis. This phenomenon has broad implications for protein engineering and drug design.
Watney
James B
JB
Department of Chemistry, 152 Davey Laboratory, Pennsylvania State University, University Park 16802, USA.
Agarwal
Pratul K
PK
Hammes-Schiffer
Sharon
S
D019943:Amino Acid Substitution; D003198:Computer Simulation; D004926:Escherichia coli / Q000201:enzymology; D005998:Glycine / Q000737:chemistry / Q000235:genetics; D006801:Humans; D007700:Kinetics; D008956:Models, Chemical; D008958:Models, Molecular; D009154:Mutation; D011487:Protein Conformation; D011789:Quantum Theory; D013762:Tetrahydrofolate Dehydrogenase / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D013816:Thermodynamics; D014633:Valine / Q000737:chemistry / Q000235:genetics
D013762:Tetrahydrofolate Dehydrogenase; D014633:Valine; D005998:Glycine