6A2F image
Entry Detail
PDB ID:
6A2F
Keywords:
ISOMERASE
Title:
Crystal structure of biosynthetic alanine racemase from Pseudomonas aeruginosa
Biological Source:
Source Organism:
Pseudomonas aeruginosa PAO1
Host Organism:
Escherichia coli
PDB Version:
Deposition Date:
2018-06-11
Release Date:
2018-08-08
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.50 Å
R-Value Free:
0.23
R-Value Work:
0.18
R-Value Observed:
0.19
Space Group:
P 21 21 21
6A2F validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:Alanine racemase, biosynthetic
Chain IDs:A, B
Chain Length:358
Number of Molecules:2
Biological Source:Pseudomonas aeruginosa PAO1
UniProt ID:Q9HUN4 Pfam ID:PF01168, PF00842 EC:5.1.1.1
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
LLP A LYS modified residue
Ligand Molecules
ACT
DLY
MLI
Primary Citation
Enzymatic characterization and crystal structure of biosynthetic alanine racemase from Pseudomonas aeruginosa PAO1.
Biochem.Biophys.Res.Commun. 503 2319 2325 (2018)
PMID: 29964014 DOI: 10.1016/j.bbrc.2018.06.155

Abstact

Alanine racemase is a pyridoxal-5'-phosphate (PLP)-dependent enzyme that reversibly catalyzes the conversion of l-alanine to d-alanine. d-alanine is an essential constituent in many prokaryotic cell structures. Inhibition of alanine racemase is lethal to prokaryotes, creating an attractive target for designing antibacterial drugs. Here we report the crystal structure of biosynthetic alanine racemase (Alr) from a pathogenic bacteria Pseudomonas aeruginosa PAO1. Structural studies showed that P. aeruginosa Alr (PaAlr) adopts a conserved homodimer structure. A guest substrate d-lysine was observed in the active site and refined to dual-conformation. Two buffer ions, malonate and acetate, were bound in the proximity to d-lysine. Biochemical characterization revealed the optimal reaction conditions for PaAlr.

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Primary Citation of related structures
6A2F