› 4ong

X-ray diffraction
2.2Å resolution

Fab fragment of 3D6 in complex with amyloid beta 1-40

Released:
DOI: 10.2210/pdb4ong/pdb
PDB entry 4ong coloured by chain, front view.
PDB entry 4ong coloured by chain, side view.
PDB entry 4ong coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure reveals conservation of amyloid-β conformation recognized by 3D6 following humanization to bapineuzumab.
Feinberg H, Saldanha JW, Diep L, Goel A, Widom A, Veldman GM, Weis WI, Schenk D, Basi GS
Alzheimers Res Ther 6 31 (2014)
PMID: 25024748

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-209165 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
3D6 FAB ANTIBODY HEAVY CHAIN Chain: H
Molecule details ›
Chain: H
Length: 222 amino acids
Theoretical weight: 23.83 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
Structure domains: Immunoglobulins
3D6 FAB ANTIBODY LIGHT CHAIN Chain: L
Molecule details ›
Chain: L
Length: 219 amino acids
Theoretical weight: 24.26 KDa
Source organism: Mus musculus
Expression system: Cricetulus griseus
Structure domains: Immunoglobulins
Amyloid-beta protein 40 Chain: P
Molecule details ›
Chain: P
Length: 40 amino acids
Theoretical weight: 4.34 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P05067 (Residues: 672-711; Coverage: 5%)
Gene names: A4, AD1, APP
Sequence domains: Beta-amyloid peptide (beta-APP)

Ligands and Environments

3 bound ligands:
Ligand ZN 27 x ZN
Ligand IMD 3 x IMD
Ligand CL 11 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P2221
Unit cell:
a: 40.04Å b: 84.94Å c: 175.69Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.18 0.177 0.227
Expression systems:
  • Cricetulus griseus
  • Not provided

Quick links

Citations

6 review citations

An Introduction to B-Cell Epitope Mapping and In Silico Epitope Prediction.
Potocnakova et al. (2016)
5 more

2 mentions without citation

Conformational selection in amyloid-based immunotherapy: Survey of crystal structures of antibody-amyloid complexes.
Ma et al. (2016)
1 more