title: Transition state stabilization by the N-terminal anticodon-binding domain of lysyl-tRNA synthetase.
abstract: Lysyl-tRNA synthetase from Bacillus stearothermophilus (B.s. LysRS) (EC ) catalyzes aminoacylation of tRNA(Lys) with l-lysine, in which l-lysine was first activated with ATP to yield an enzyme (lysyladenylate complex), and then the lysine molecule was transferred from the complex to tRNA(Lys). B.s. LysRS is a homodimeric enzyme with a subunit that consists of two domains, an N-terminal tRNA anticodon-binding domain (TAB-ND: Ser(1)-Pro(144)) and a C-terminal Class II-specific catalytic domain (CAT-CD: Lys(151)-Lys(493)). CAT-CD alone retained catalytic activity, although at a low level; TAB-ND alone showed no activity. Size exclusion chromatography revealed that CAT-CD exists as a dimer, whereas TAB-ND was a monomer. The formation of a complex consisting of these domains was detected with the guidance of surface plasmon resonance. In accordance with this, the addition of TAB-ND to CAT-CD significantly enhanced both the l-lysine activation and the tRNA aminoacylation reactions. Kinetic analysis showed that deletion of TAB-ND resulted in a significant destabilization of the transition state of CAT-CD in the l-lysine activation reaction but had little effect on the ground state of substrate binding. A significant role of a cross-subunit interaction in the enzyme between TAB-ND and CAT-CD was proposed for the stabilization of the transition state in the l-lysine activation reaction.
authors.affiliation: Division of Food Science and Biotechnology, Graduate School of Agriculture, Kyoto University, Kitashirakawa, Kyoto 606-8502, Japan. takita@kais.kyoto-u.ac.jp
authors.forename: Teisuke
authors.initials: T
authors.lastname: Takita
authors.forename: Kuniyo
authors.initials: K
authors.lastname: Inouye
mesh_terms: D020134:Catalytic Domain; D002942:Circular Dichroism; D003062:Codon; D019281:Dimerization; D004305:Dose-Response Relationship, Drug; D004591:Electrophoresis, Polyacrylamide Gel; D001411:Geobacillus stearothermophilus / Q000201:enzymology; D007700:Kinetics; D008239:Lysine / Q000378:metabolism; D008250:Lysine-tRNA Ligase / Q000737:chemistry*; D008956:Models, Chemical; D008958:Models, Molecular; D010957:Plasmids / Q000378:metabolism; D011485:Protein Binding; D017434:Protein Structure, Tertiary; D020349:Surface Plasmon Resonance; D013816:Thermodynamics; D014466:Ultraviolet Rays
chemical_list: D003062:Codon; D008250:Lysine-tRNA Ligase; D008239:Lysine