› 3d9a

X-ray diffraction
1.2Å resolution

High Resolution Crystal Structure Structure of HyHel10 Fab Complexed to Hen Egg Lysozyme

Released:
DOI: 10.2210/pdb3d9a/pdb
PDB entry 3d9a coloured by chain, front view.
PDB entry 3d9a coloured by chain, side view.
PDB entry 3d9a coloured by chain, top view.
Source organisms:
Primary publication:
Light chain somatic mutations change thermodynamics of binding and water coordination in the HyHEL-10 family of antibodies.
Acchione M, Lipschultz CA, DeSantis ME, Shanmuganathan A, Li M, Wlodawer A, Tarasov S, Smith-Gill SJ
Mol Immunol 47 457-64 (2009)
PMID: 19781789

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 domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208270 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Lysozyme C Chain: C
Molecule details ›
Chain: C
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
Light Chain of HyHel10 Antibody Fragment (Fab) Chain: L
Molecule details ›
Chain: L
Length: 213 amino acids
Theoretical weight: 23.45 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
Structure domains: Immunoglobulins
Heavy Chain of HyHel10 Antibody Fragment (Fab) Chain: H
Molecule details ›
Chain: H
Length: 210 amino acids
Theoretical weight: 22.78 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: P21
Unit cell:
a: 39.842Å b: 77.385Å c: 89.115Å
α: 90° β: 96.66° γ: 90°
R-values:
R R work R free
0.191 0.19 0.205
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Survey of the year 2009: applications of isothermal titration calorimetry.
Falconer et al. (2011)
1 more

16 mentions without citation

The structural basis of antibody-antigen recognition.
Sela-Culang et al. (2013)
15 more