› 4u3x

X-ray diffraction
2.26Å resolution

Structure of a human VH antibody domain binding to the cleft of hen egg lysozyme

Released:
DOI: 10.2210/pdb4u3x/pdb
PDB entry 4u3x coloured by chain, front view.
PDB entry 4u3x coloured by chain, side view.
PDB entry 4u3x coloured by chain, top view.
Source organisms:
Primary publication:
Fully Human VH Single Domains That Rival the Stability and Cleft Recognition of Camelid Antibodies.
Rouet R, Dudgeon K, Christie M, Langley D, Christ D
J Biol Chem 290 11905-17 (2015)
PMID: 25737448

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:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-235003 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Human VH domain antibody Chains: A, C
Molecule details ›
Chains: A, C
Length: 121 amino acids
Theoretical weight: 13.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Lysozyme C Chains: B, D
Molecule details ›
Chains: B, D
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

1 bound ligand:
Ligand EDO 2 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P21
Unit cell:
a: 68.07Å b: 39.24Å c: 100.18Å
α: 90° β: 104.16° γ: 90°
R-values:
R R work R free
0.192 0.189 0.248
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Challenges and opportunities for non-antibody scaffold drugs.
Vazquez-Lombardi et al. (2015)
7 more

6 mentions without citation

Structural Aspects of the Allergen-Antibody Interaction.
Pomés et al. (2020)
5 more