Computational Studies on Cross-Linking Process

Rasoul Nasiri

Research output: Contribution to conferenceAbstract


Cross-linking in proteins by α, β-dicarbonyl compounds is one of the most damaging consequences of reactive carbonyl species in vivo and in foodstuffs. In this study, cross-linking of glyoxal and methyl glyoxal with lysine and arginine residues were investigated computationally using density functional theory and the wB97XD dispersion-corrected functional. Five pathways, A-E, for pentosidine [1], methyl glyoxal-derived imidazolium cross-linking (MODIC) [2] and glyoxal-derived imidazolium cross-linking (GODIC) [2] have been characterized. In pathways A and B, the reaction proceeds via formation of the Schiff base, aldimine, followed by addition of arginine for MODIC(GODIC) formation and also glyoxal (GO) in third stage of process for pentosidine. By contrast, in pathways C-E, direct addition of arginine to the dicarbonyl compounds occurs first, leading to a dihydroxyimidazolidine intermediate, which then reacts with lysine after dehydration and proton transfer reactions, resulting in the formation of MODIC (GODIC) and then reacts with GO to give pentosidine. The finding reveal that pathways A, C and E are competitive whereas reactions via pathways B and D are much less favorable. Inclusion of up to five explicit water molecules in the proton transfer and dehydration steps is found to lower the free energy barriers in the feasible pathways by about 5–20 kcal/mol.
Original languageEnglish
Number of pages1
Publication statusPublished - 1 Jan 2015
Event26th Molecular Modeling Workshop - Erlangen-Nuremberg, Germany, 12-14 March 2015
Duration: 1 Jan 2015 → …


Workshop26th Molecular Modeling Workshop
Period1/01/15 → …


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