› 5zqc

X-ray diffraction
1.7Å resolution

Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Ampicillin bound form

Released:
DOI: 10.2210/pdb5zqc/pdb
PDB entry 5zqc coloured by chain, front view.
PDB entry 5zqc coloured by chain, side view.
PDB entry 5zqc coloured by chain, top view.
Source organism: Listeria monocytogenes EGD-e
Primary publication:
Crystal Structures of Penicillin-Binding Protein D2 from Listeria monocytogenes and Structural Basis for Antibiotic Specificity.
Jeong JH, Cha HJ, Kim YG
Antimicrob Agents Chemother 62 (2018)
PMID: 30082290

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-186930 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peptidase S11 D-alanyl-D-alanine carboxypeptidase A N-terminal domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 276 amino acids
Theoretical weight: 30.09 KDa
Source organism: Listeria monocytogenes EGD-e
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8Y3M3 (Residues: 21-272; Coverage: 100%)
Gene name: lmo2812
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand AIX 4 x AIX
Ligand GOL 4 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 5C (4A)
Spacegroup: P21
Unit cell:
a: 74.884Å b: 98.85Å c: 77.441Å
α: 90° β: 104.21° γ: 90°
R-values:
R R work R free
0.223 0.223 0.26
Expression system: Escherichia coli

Quick links

Citations

2 review citations

The Revaluation of Plant-Derived Terpenes to Fight Antibiotic-Resistant Infections.
Cappiello et al. (2020)
1 more

1 mention without citation

Crystal Structures of Penicillin-Binding Protein D2 from Listeria monocytogenes and Structural Basis for Antibiotic Specificity.
Jeong et al. (2018)