8DAI

E. coli DHFR complex with NADP+ and 10-methylfolate

Summary for 8DAI

• Entry DOI: 10.2210/pdb8dai/pdb
• Descriptor: Dihydrofolate reductase, methopterin, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ... (5 entities in total)
• Functional Keywords: dihydrofolate reductase, oxidoreductase
• Biological source: Escherichia coli K-12
• Total number of polymer chains: 1
• Total formula weight: 19469.92

Authors

Greisman, J.B.,Brookner, D.E.,Hekstra, D.R. (deposition date: 2022-06-13, release date: 2023-06-21, Last modification date: 2024-07-24)

Primary citation

Greisman, J.B.,Dalton, K.M.,Brookner, D.E.,Klureza, M.A.,Sheehan, C.J.,Kim, I.S.,Henning, R.W.,Russi, S.,Hekstra, D.R.
Perturbative diffraction methods resolve a conformational switch that facilitates a two-step enzymatic mechanism.
Proc.Natl.Acad.Sci.USA, 121:e2313192121-e2313192121, 2024

PubMed Abstract: Enzymes catalyze biochemical reactions through precise positioning of substrates, cofactors, and amino acids to modulate the transition-state free energy. However, the role of conformational dynamics remains poorly understood due to poor experimental access. This shortcoming is evident with dihydrofolate reductase (DHFR), a model system for the role of protein dynamics in catalysis, for which it is unknown how the enzyme regulates the different active site environments required to facilitate proton and hydride transfer. Here, we describe ligand-, temperature-, and electric-field-based perturbations during X-ray diffraction experiments to map the conformational dynamics of the Michaelis complex of DHFR. We resolve coupled global and local motions and find that these motions are engaged by the protonated substrate to promote efficient catalysis. This result suggests a fundamental design principle for multistep enzymes in which pre-existing dynamics enable intermediates to drive rapid electrostatic reorganization to facilitate subsequent chemical steps.

PubMed: 38386706
DOI: 10.1073/pnas.2313192121

Experimental method

X-RAY DIFFRACTION (1.14 Å)