7YPM

Crystal structure of transaminase CC1012 complexed with PLP and L-alanine

Summary for 7YPM

• Entry DOI: 10.2210/pdb7ypm/pdb
• Descriptor: Aspartate aminotransferase family protein, PYRIDOXAL-5'-PHOSPHATE, ALANINE, ... (6 entities in total)
• Functional Keywords: complex, tranaminase, transferase
• Biological source: Caulobacter sp. D5
• Total number of polymer chains: 4
• Total formula weight: 209464.33

Authors

Yang, L.,Wang, H.,Wei, D. (deposition date: 2022-08-03, release date: 2023-05-24, Last modification date: 2023-11-29)

Primary citation

Yang, L.,Zhang, K.,Xu, M.,Xie, Y.,Meng, X.,Wang, H.,Wei, D.
Mechanism-Guided Computational Design of omega-Transaminase by Reprograming of High-Energy-Barrier Steps.
Angew.Chem.Int.Ed.Engl., 61:e202212555-e202212555, 2022

PubMed Abstract: ω-Transaminases (ω-TAs) show considerable potential for the synthesis of chiral amines. However, their low catalytic efficiency towards bulky substrates limits their application, and complicated catalytic mechanisms prevent precise enzyme design. Herein, we address this challenge using a mechanism-guided computational enzyme design strategy by reprograming the transition and ground states in key reaction steps. The common features among the three high-energy-barrier steps responsible for the low catalytic efficiency were revealed using quantum mechanics (QM). Five key residues were simultaneously tailored to stabilize the rate-limiting transition state with the aid of the Rosetta design. The 14 top-ranked variants showed 16.9-143-fold improved catalytic activity. The catalytic efficiency of the best variant, M9 (Q25F/M60W/W64F/I266A), was significantly increased, with a 1660-fold increase in k /K and a 1.5-26.8-fold increase in turnover number (TON) towards various indanone derivatives.

PubMed: 36300723
DOI: 10.1002/anie.202212555

Experimental method

X-RAY DIFFRACTION (1.984 Å)