3O11

Anti-beta-amyloid antibody c706 fab in space group c2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.220 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

His-tag binding by antibody C706 mimics Beta-amyloid recognition.

Teplyakov, A.Obmolova, G.Canziani, G.Zhao, Y.Gutshall, L.Jung, S.S.Gilliland, G.L.

(2010) J.Mol.Recognit. --: --

  • DOI: 10.1002/jmr.1069
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Alzheimer's disease is a progressive neurodegenerative disease characterized by extracellular deposits of β-amyloid (Aβ) plaques. Aggregation of the Aβ(42) peptide leading to plaque formation is believed to play a central role in Alzheimer's disease ...

    Alzheimer's disease is a progressive neurodegenerative disease characterized by extracellular deposits of β-amyloid (Aβ) plaques. Aggregation of the Aβ(42) peptide leading to plaque formation is believed to play a central role in Alzheimer's disease pathogenesis. Anti-Aβ monoclonal antibodies can reduce amyloid plaques and could possibly be used for immunotherapy. We have developed a monoclonal antibody C706, which recognizes the human Aβ peptide. Here we report the crystal structure of the antibody Fab fragment at 1.7 Å resolution. The structure was determined in two crystal forms, P2(1) and C2. Although the Fab was crystallized in the presence of Aβ(16), no peptide was observed in the crystals. The antigen-binding site is blocked by the hexahistidine tag of another Fab molecule in both crystal forms. The poly-His peptide in an extended conformation occupies a crevice between the light and heavy chains of the variable domain. Two consecutive histidines (His4-His5) stack against tryptophan residues in the central pocket of the antigen-binding surface. In addition, they form hydrogen bonds to the acidic residues at the bottom of the pocket. The mode of his-tag binding by C706 resembles the Aβ recognition by antibodies PFA1 and WO2. All three antibodies recognize the same immunodominant B-cell epitope of Aβ. By similarity, residues Phe-Arg-His of Aβ would be a major portion of the C706 epitope.


    Organizational Affiliation

    Centocor R&D, 145 King of Prussia Road, Radnor, PA 19087, USA. ateplyak@its.jnj.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
C706 LIGHT CHAIN variable region, Ig kappa chain C region chimera
L, A
212Homo sapiensMutation(s): 0 
Gene Names: IGKC
Find proteins for P01834 (Homo sapiens)
Go to UniProtKB:  P01834
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
C706 HEAVY CHAIN variable region, Ig gamma-1 chain C region chimera
H, B
228Homo sapiensMutation(s): 0 
Gene Names: IGHG1
Find proteins for P01857 (Homo sapiens)
Go to UniProtKB:  P01857
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PCA
Query on PCA
A, B, H, L
L-PEPTIDE LINKINGC5 H7 N O3GLN
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.220 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 136.040α = 90.00
b = 45.020β = 92.69
c = 158.200γ = 90.00
Software Package:
Software NamePurpose
d*TREKdata reduction
REFMACrefinement
d*TREKdata scaling
CrystalCleardata collection
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-09-08
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-09-05
    Type: Derived calculations
  • Version 1.3: 2017-08-16
    Type: Refinement description, Source and taxonomy
  • Version 2.0: 2019-12-25
    Type: Database references, Derived calculations, Polymer sequence