A bstractTransglutam inase enzym es (TG ases) catalyze the calcium dependent formation of an isopeptide bond betw een protein-bound glutam ine and lysine substrates. Previously w e have show n that activated TG ase 3 acquires tw o additional calcium ions at site tw o and three. The calcium ion at site three results in the opening of a channel. A t this site, the channel opening and closing could m odulate, depending on which m etal is bound. Here we propose that the front of the channel could be used by the tw o substrates for enzym e reaction. W e propose that the glutam ine substrate is directed from Trp236 into the enzym e, shown by m olecular docking. Then a lysine substrate approaches the opened active site to engage Trp327, leading to form ation of the isopeptide bond. Further, direct com parisons of the structures of TG ase 3 w ith other TG ases have allow ed us to identify several residues that m ight potentially be involved in generic and specific recognition of the glutam ine and lysine substrates.Keywords: calcium ions; protein structure; residue specificity; TGase; TGase mechanism; X-ray crystallography
IntroductionTransglutaminases (TGase; protein-glutamine: amine γ-glutamyl-transferase) are a family of calcium-dependent acyl-transfer enzymes that are widely expressed in biota (Folk and Chung, 1985;Greenberg et al., 1991;Melino et al., 1998;Melino et al., 2000;Fesus and Piacentini, 2002). Each of the eight active human TGase enzyme isoforms can activate a protein-bound Gln residue to form a thiol-acyl enzyme intermediate, which is attacked by a second nucleophilic substrate to accomplish the two-step reaction. The reaction leads to the formation of an isopeptide bond between two proteins and the covalent incorporation of polyamine into protein (Folk and Chung, 1985;Greenberg et al., 1991). The nucleophile may be: water, so that the activated Gln residue is deamidated to a Glu; a polyamine, so that a mono-substituted adduct or bi-substituted cross-link is formed; an alcohol, particularly the ω-hydroxyl group of certain long-chain ceramides expressed in mammalian epidermis, to form an ester; and perhaps most commonly, an ε-NH2 group of a protein bound Lys residue, resulting in the formation of an N ε -(γ-glutamyl)lysine isopeptide cross-link Nemes et al., 2000). This stabilizes macromolecular protein complexes. Typically, TGases recognize the generic sequence motif Gln-Gln*-Val for the first step of the reaction (where Gln* represents the targeted residue), although different isoforms display specificity as to which substrates bearing the motif may approach the enzyme . Anecdotal data suggest less specificity for Lys substrates (Tarcsa et al., 1998;Candi et al., 1999;.The three dimensional structures of four TGases have now been reported, i.e. human factor XIIIa (hfXIIIa) ), TGase 2 (Liu et al., 2002, TGase 3 enzymes (Ahvazi et al., 2002;2003), and a fish enzyme (fTG, equivalent to mammalian TGase 2, Noguchi et al., 2001). All consist of four domains that are similar in organization and fold (Figure 1...