5YYC image
Entry Detail
PDB ID:
5YYC
Keywords:
Title:
Crystal structure of alanine racemase from Bacillus pseudofirmus (OF4)
Biological Source:
PDB Version:
Deposition Date:
2017-12-08
Release Date:
2019-01-02
Method Details:
Experimental Method:
Resolution:
1.80 Å
R-Value Free:
0.17
R-Value Work:
0.14
R-Value Observed:
0.15
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Alanine racemase
Chain IDs:A, B (auth: C)
Chain Length:369
Number of Molecules:2
Biological Source:Bacillus pseudofirmus (strain OF4)
Ligand Molecules
Primary Citation
Structural features and kinetic characterization of alanine racemase from Bacillus pseudofirmus OF4.
Biochem. Biophys. Res. Commun. 497 139 145 (2018)
PMID: 29427660 DOI: 10.1016/j.bbrc.2018.02.041

Abstact

Alanine racemase (Alr) is a pyridoxal-5'-phosphate-dependent (PLP) enzyme that catalyzes a reversible racemization between the enantiomers of alanine. d-Alanine is an indispensable constituent in the biosynthesis of bacterial cell-wall peptidoglycan, and its inhibition is lethal to prokaryotes, which makes it an attractive target for designing antibacterial drugs. In this study, the molecular structure of alanine racemase from Bacillus pseudofirmus OF4 (DadXOF4) was determined by X-ray crystallography to a resolution of 1.8 Å. The comparison of DadXOF4 with alanine racemases from other bacteria demonstrated a conserved overall fold. Enzyme kinetics analysis showed that the conserved residues at the substrate entryway and the salt bridge at the dimer interface are critical for enzyme activity. These structural and biochemical findings provide a template for future structure-based drug-development efforts targeting alanine racemases.

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