4zyb

X-ray diffraction
1.5Å resolution

High resolution structure of M23 peptidase LytM with substrate analogue

Released:

Function and Biology Details

Reaction catalysed:
Hydrolysis of the -Gly-|-Gly- bond in the pentaglycine inter-peptide link joining staphylococcal cell wall peptidoglycans.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
monomeric (preferred)
PDBe Complex ID:
PDB-CPX-128493 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycyl-glycine endopeptidase LytM Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 134 amino acids
Theoretical weight: 14.56 KDa
Source organism: Staphylococcus aureus subsp. aureus NCTC 8325
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O33599 (Residues: 185-316; Coverage: 45%)
Gene names: SAOUHSC_00248, lytM
Sequence domains: Peptidase family M23
Structure domains: Glucose Permease (Domain IIA)

Ligands and Environments

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.1
Spacegroup: P21
Unit cell:
a: 31.988Å b: 101.563Å c: 77.763Å
α: 90° β: 91.48° γ: 90°
R-values:
R R work R free
0.151 0.15 0.185
Expression system: Escherichia coli BL21(DE3)