A quantum chemical study of the enzymatic deamination of benzoadenine derivatives. A theoretical model of the interactions occurring between nucleosides and the active site of adenosine deaminase.
A theoretical study is presented, where, by using both ab initio and semi-empirical methodologies, the properties of benzoadenine derivatives as substrates of adenosine deaminase are discussed. The results suggest that lin-benzoadenine and lin-benzoadenosine can be recognized with an affinity similar to that of adenosine, but only if they are introduced about 0.12 nm deeper inside the active site of the enzyme than the natural substrate adenosine. This fact implies the existence of non-linear hydrogen bonds inside the active site of adenosine deaminase. Ab initio molecular electrostatic potential values suggest that these hydrogen bonds can exist, and have stability similar to that of linear hydrogen bonds. Finally, the great rate of deamination of lin-benzoadenine, comparable with that of adenosine despite the absence of the ribose, is explained in the context of the hypothesis that the protonation at the N1 atom is the rate-determining step of the whole deamination reaction.
Orozco
M
M
Departamento de Bioquímica y Fisiología, Facultad de Quimica, Universidad de Barcelona, Spain.
Canela
E I
EI
Franco
R
R
D000241:Adenosine / Q000031:analogs & derivatives* / Q000378:metabolism / Q000494:pharmacology; D000243:Adenosine Deaminase / Q000378:metabolism*; D001665:Binding Sites / Q000502:physiology; D001667:Binding, Competitive; D055598:Chemical Phenomena; D002627:Chemistry, Physical; D003641:Deamination; D004563:Electrochemistry; D004735:Energy Transfer; D006860:Hydrogen Bonding; D008956:Models, Chemical; D008958:Models, Molecular; D009700:Nucleoside Deaminases / Q000378:metabolism*; D011522:Protons; D013379:Substrate Specificity
D011522:Protons; C018223:benzoadenosine; D009700:Nucleoside Deaminases; D000243:Adenosine Deaminase; D000241:Adenosine