Molecular modeling insights into the catalytic mechanism of the retaining galactosyltransferase LgtC.
The bacterial enzyme lipopolysaccharyl alpha-galactosyltransferase C (EC 2.4.1.x, LgtC) is involved in the synthesis of lipooligosaccharides displayed on the cell surfaces of Neisseria meningitidis. LgtC catalyzes the transfer of a galactosyl residue from UDP-Gal to the terminal galactose residue of glycoconjugates with an overall retention of stereochemistry at the anomeric center. Several hypothetical catalytic mechanisms of the LgtC enzyme were examined herein using DFT quantum chemical methods up to the B3LYP/6-311++G**//B3LYP/6-31G* level. The computational model used to follow the reaction is based on the crystallographic structure of LgtC in complex with both the nucleotide-galactose donor and the oligosaccharide-acceptor analogues. The 136 atoms included in this model represent fragments of residues critical for the substrate binding and catalysis. From our calculations, the preferred pathway is predicted to be a one step mechanism with the nucleophilic attack of the acceptor oxygen onto the anomeric carbon and the proton transfer to a phosphate oxygen occurring simultaneously. This mechanism has an A(N)D(N)A(H)D(H) character, with the unique transition state structure in which the attacking galactose group is more closely bound to the anomeric carbon than to the UDP leaving group and where the hydrogen bond between the nucleophile and the leaving group oxygens facilitates the attack of the acceptor O4(') from the same side of the transferred galactose.
Tvaroska
Igor
I
Institute of Chemistry, Slovak Academy of Sciences, Bratislava 845-38, Slovak Republic. chemitsa@savba.sk
D001426:Bacterial Proteins / Q000737:chemistry* / Q000378:metabolism*; D020134:Catalytic Domain / Q000502:physiology*; D003198:Computer Simulation; D016695:Glycosyltransferases / Q000737:chemistry* / Q000378:metabolism*; D007785:Lactose / Q000031:analogs & derivatives / Q000378:metabolism; D008345:Manganese / Q000378:metabolism; D008958:Models, Molecular; D014531:Uridine Diphosphate Galactose / Q000031:analogs & derivatives / Q000378:metabolism
D001426:Bacterial Proteins; D014531:Uridine Diphosphate Galactose; D008345:Manganese; D016695:Glycosyltransferases; C101829:LgtC protein, Neisseria; D007785:Lactose