› 4ngz

X-ray diffraction
1.7Å resolution

Previously de-ionized HEW lysozyme crystallized in 0.5 M YbCl3/30% (v/v) glycerol and collected at 125K

Released:
DOI: 10.2210/pdb4ngz/pdb
PDB entry 4ngz coloured by chain, front view.
PDB entry 4ngz coloured by chain, side view.
PDB entry 4ngz coloured by chain, top view.
Source organism: Gallus gallus
Primary publication:
Weak protein-cationic co-ion interactions addressed by X-ray crystallography and mass spectrometry.
Bénas P, Auzeil N, Legrand L, Brachet F, Regazzetti A, Riès-Kautt M
Acta Crystallogr D Biol Crystallogr 70 2217-31 (2014)
PMID: 25084340

Function and Biology Details

Reaction catalysed: 
Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132831 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lysozyme C Chain: A
Molecule details ›
Chain: A
Length: 129 amino acids
Theoretical weight: 14.33 KDa
Source organism: Gallus gallus
UniProt:
  • Canonical: P00698 (Residues: 19-147; Coverage: 100%)
Gene name: LYZ
Sequence domains: C-type lysozyme/alpha-lactalbumin family
Structure domains: Lysozyme

Ligands and Environments

2 bound ligands:
Ligand YB 3 x YB
Ligand CL 3 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P43212
Unit cell:
a: 78.589Å b: 78.589Å c: 37.017Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.181 0.178 0.205

Quick links

Citations

1 citations in other articles

Nucleobase carbonyl groups are poor Mg2+ inner-sphere binders but excellent monovalent ion binders-a critical PDB survey.
Leonarski et al. (2019)