7RM6 image
Deposition Date 2021-07-26
Release Date 2022-04-27
Last Version Date 2023-10-18
Entry Detail
PDB ID:
7RM6
Title:
Horse liver alcohol dehydrogenase in complex with NADH and N-cylcohexyl formamide
Biological Source:
Source Organism:
Equus caballus (Taxon ID: 9796)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.43 Å
R-Value Free:
0.20
R-Value Work:
0.18
R-Value Observed:
0.19
Space Group:
P 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Alcohol dehydrogenase E chain
Chain IDs:A, B
Chain Length:377
Number of Molecules:2
Biological Source:Equus caballus
Primary Citation
A two-directional vibrational probe reveals different electric field orientations in solution and an enzyme active site.
Nat.Chem. 14 891 897 (2022)
PMID: 35513508 DOI: 10.1038/s41557-022-00937-w

Abstact

The catalytic power of an electric field depends on its magnitude and orientation with respect to the reactive chemical species. Understanding and designing new catalysts for electrostatic catalysis thus requires methods to measure the electric field orientation and magnitude at the molecular scale. We demonstrate that electric field orientations can be extracted using a two-directional vibrational probe by exploiting the vibrational Stark effect of both the C=O and C-D stretches of a deuterated aldehyde. Combining spectroscopy with molecular dynamics and electronic structure partitioning methods, we demonstrate that, despite distinct polarities, solvents act similarly in their preference for electrostatically stabilizing large bond dipoles at the expense of destabilizing small ones. In contrast, we find that for an active-site aldehyde inhibitor of liver alcohol dehydrogenase, the electric field orientation deviates markedly from that found in solvents, which provides direct evidence for the fundamental difference between the electrostatic environment of solvents and that of a preorganized enzyme active site.

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Primary Citation of related structures
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