› 1kip

X-ray diffraction
2.1Å resolution

FV MUTANT Y(B 32)A (VH DOMAIN) OF MOUSE MONOCLONAL ANTIBODY D1.3 COMPLEXED WITH HEN EGG WHITE LYSOZYME

Released:
DOI: 10.2210/pdb1kip/pdb
PDB entry 1kip coloured by chain, front view.
PDB entry 1kip coloured by chain, side view.
PDB entry 1kip coloured by chain, top view.
Source organisms:
Primary publication:
Hydrogen bonding and solvent structure in an antigen-antibody interface. Crystal structures and thermodynamic characterization of three Fv mutants complexed with lysozyme.
Fields BA, Goldbaum FA, Dall'Acqua W, Malchiodi EL, Cauerhff A, Schwarz FP, Ysern X, Poljak RJ, Mariuzza RA
Biochemistry 35 15494-503 (1996)
PMID: 8952503

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 domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-208232 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Immunoglobulin kappa chain variable 12-41 Chain: A
Molecule details ›
Chain: A
Length: 107 amino acids
Theoretical weight: 11.7 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01635 (Residues: 21-115; Coverage: 100%)
Gene names: Gm16848, Igkv12-41
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins
MONOCLONAL ANTIBODY D1.3 Chain: B
Molecule details ›
Chain: B
Length: 116 amino acids
Theoretical weight: 12.77 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Lysozyme C Chain: C
Molecule details ›
Chain: C
Length: 129 amino acids
Theoretical weight: 14.33 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli
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

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: C2
Unit cell:
a: 129.23Å b: 60.44Å c: 56.63Å
α: 90° β: 119.05° γ: 90°
R-values:
R R work R free
0.162 0.162 not available
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Anatomy of an antibody molecule: structure, kinetics, thermodynamics and mutational studies of the antilysozyme antibody D1.3.
Braden et al. (1998)
1 more

7 mentions without citation

RCSB Protein Data Bank: Sustaining a living digital data resource that enables breakthroughs in scientific research and biomedical education.
Burley et al. (2018)
6 more