The electrostatic potential of Escherichia coli dihydrofolate reductase.
Escherichia coli dihydrofolate reductase (DHFR) carries a net charge of -10 electrons yet it binds ligands with net charges of -4 (NADPH) and -2 (folate or dihydrofolate). Evaluation and analysis of the electrostatic potential of the enzyme give insight as to how this is accomplished. The results show that the enzyme is covered by an overall negative potential (as expected) except for the ligand binding sites, which are located inside "pockets" of positive potential that enable the enzyme to bind the negatively charged ligands. The electrostatic potential can be related to the asymmetric distribution of charged residues in the enzyme. The asymmetric charge distribution, along with the dielectric boundary that occurs at the solvent-protein interface, is analogous to the situation occurring in superoxide dismutase. Thus DHFR is another case where the shape of the active site focuses electric fields out into solution. The positive electrostatic potential at the entrance of the ligand binding site in E. coli DHFR is shown to be a direct consequence of the presence of three positively charged residues at positions 32, 52, and 57--residues which have also been shown recently to contribute significantly to electronic polarization of the ligand folate. The latter has been postulated to be involved in the catalytic process. A similar structural motif of three positively charged amino acids that gives rise to a positive potential at the entrance to the active site is also found in DHFR from chicken liver, and is suggested to be a common feature in DHFRs from many species. It is noted that, although the net charges of DHFRs from different species vary from +3 to -10, the enzymes are able to bind the same negatively charged ligands, and perform the same catalytic function.
Bajorath
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Biosym Technologies, Inc., San Diego, California 92121.
Kitson
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Kraut
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Hagler
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D000596:Amino Acids / Q000737:chemistry; D001665:Binding Sites; D055598:Chemical Phenomena; D002627:Chemistry, Physical; D003196:Computer Graphics; D004926:Escherichia coli / Q000201:enzymology; D008432:Mathematical Computing; D008956:Models, Chemical; D008958:Models, Molecular; D009249:NADP / Q000737:chemistry; D012996:Solutions / Q000737:chemistry; D013762:Tetrahydrofolate Dehydrogenase / Q000737:chemistry*
D000596:Amino Acids; D012996:Solutions; D009249:NADP; D013762:Tetrahydrofolate Dehydrogenase