Binding of pyrimidin-2-one ribonucleoside by cytidine deaminase as the transition-state analogue 3,4-dihydrouridine and the contribution of the 4-hydroxyl group to its binding affinity.
Cytidine deaminase, purified to homogeneity from constitutive mutants of Escherichia coli, was found to bind the competitive inhibitors pyrimidin-2-one ribonucleoside (apparent Ki = 3.6 x 10(-7) M) and 5-fluoropyrimidin-2-one ribonucleoside (apparent Ki = 3.5 x 10(-8) M). Enzyme binding resulted in a change of the lambda max of pyrimidin-2-one ribonucleoside from 303 nm for the free species to 239 nm for the bound species. The value for the bound species was identical with that of an oxygen adduct formed by combination of hydroxide ion with 1,3-dimethyl-2-oxopyrimidinium (239 nm), but lower than that of a sulfur adduct formed by combination of the thiolate anion of N-acetylcysteamine with 1,3-dimethyl-2-oxopyrimidinium (259 nm). The results suggest that pyrimidin-2-one ribonucleoside is bound by cytidine deaminase as an oxygen adduct, probably the covalent hydrate 3,4-dihydrouridine, rather than intact or as an adduct involving a thiol group of the enzyme. In dilute solution at 25 degrees C, the equilibrium constant for formation of a single diastereomer of 3,4-dihydrouridine from pyrimidin-2-one ribonucleoside was estimated as approximately 4.7 x 10(-6), from equilibria of dissociation of water, protonation of 1-methylpyrimidin-2-one, and combination of the 1,3-dimethylpyrimidinium cation with the hydroxide ion.(ABSTRACT TRUNCATED AT 250 WORDS)
Frick
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Department of Biochemistry, University of North Carolina, Chapel Hill 27599.
Yang
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C
Marquez
V E
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Wolfenden
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D003562:Cytidine / Q000031:analogs & derivatives; D003564:Cytidine Deaminase / Q000302:isolation & purification / Q000378:metabolism*; D004591:Electrophoresis, Polyacrylamide Gel; D004926:Escherichia coli / Q000201:enzymology; D015394:Molecular Structure; D009700:Nucleoside Deaminases / Q000378:metabolism*; D011741:Pyrimidine Nucleosides / Q000378:metabolism*; D011744:Pyrimidinones / Q000378:metabolism*; D012263:Ribonucleosides / Q000378:metabolism; D013056:Spectrophotometry, Ultraviolet; D013816:Thermodynamics; D014529:Uridine / Q000031:analogs & derivatives* / Q000378:metabolism
D011741:Pyrimidine Nucleosides; D011744:Pyrimidinones; D012263:Ribonucleosides; C010922:5,6-dihydrouridine; D003562:Cytidine; C059356:5-fluoropyrimidin-2-one beta-ribofuranoside; C009131:pyrimidin-2-one beta-ribofuranoside; D009700:Nucleoside Deaminases; D003564:Cytidine Deaminase; D014529:Uridine