› 4qpb

X-ray diffraction
1.78Å resolution

Catalytic domain of the antimicrobial peptidase lysostaphin from Staphylococcus simulans crystallized in the absence of phosphate

Released:
DOI: 10.2210/pdb4qpb/pdb
PDB entry 4qpb coloured by chain, front view.
PDB entry 4qpb coloured by chain, side view.
PDB entry 4qpb coloured by chain, top view.
Source organism: Staphylococcus simulans
Primary publication:
Crystal structure of the antimicrobial peptidase lysostaphin from Staphylococcus simulans.
Sabala I, Jagielska E, Bardelang PT, Czapinska H, Dahms SO, Sharpe JA, James R, Than ME, Thomas NR, Bochtler M
FEBS J 281 4112-22 (2014)
PMID: 25039253

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
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145336 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lysostaphin Chains: A, B
Molecule details ›
Chains: A, B
Length: 140 amino acids
Theoretical weight: 15.34 KDa
Source organism: Staphylococcus simulans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P10547 (Residues: 248-386; Coverage: 30%)
Gene name: lss
Sequence domains: Peptidase family M23
Structure domains: Glucose Permease (Domain IIA)

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P21
Unit cell:
a: 34.289Å b: 107.318Å c: 34.307Å
α: 90° β: 97.63° γ: 90°
R-values:
R R work R free
0.211 0.21 0.244
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Cell Wall Hydrolases in Bacteria: Insight on the Diversity of Cell Wall Amidases, Glycosidases and Peptidases Toward Peptidoglycan.
Vermassen et al. (2019)
4 more

3 mentions without citation

One fold, many functions-M23 family of peptidoglycan hydrolases.
Razew et al. (2022)
2 more