› 6xv5

X-ray diffraction
2.67Å resolution

Crystal structure of penicillin-binding protein 2 from Yersinia pestis in complex with ertapenem

Released:
DOI: 10.2210/pdb6xv5/pdb
Model geometry
Fit model/data
PDB entry 6xv5 coloured by chain, front view.
PDB entry 6xv5 coloured by chain, side view.
PDB entry 6xv5 coloured by chain, top view.
Source organism: Yersinia pestis
Entry authors: Pankov G, Hunter WN, Dawson A

Function and Biology Details

Reaction catalysed: 
Preferential cleavage: (Ac)(2)-L-Lys-D-Ala-|-D-Ala. Also transpeptidation of peptidyl-alanyl moieties that are N-acyl substituents of D-alanine.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-236619 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peptidoglycan D,D-transpeptidase MrdA Chains: AAA, BBB
Molecule details ›
Chains: AAA, BBB
Length: 583 amino acids
Theoretical weight: 66.01 KDa
Source organism: Yersinia pestis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A0H2W2Y2 (Residues: 49-613; Coverage: 90%)
Gene names: YPO2604, mrdA, pbpA
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand TLA 1 x TLA
1 modified residue:
Ligand O2E 2 x O2E

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P212121
Unit cell:
a: 56.265Å b: 147.772Å c: 164.523Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.216 0.213 0.285
Expression system: Escherichia coli BL21(DE3)

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