Structure of a monoclonal 2E8 Fab antibody fragment specific for the low-density lipoprotein-receptor binding region of apolipoprotein E refined at 1.9 A

Acta Crystallogr D Biol Crystallogr. 1999 Jan;55(Pt 1):122-8. doi: 10.1107/S090744499800938X. Epub 1999 Jan 1.

Abstract

The crystal structure of the Fab fragment of 2E8, the monoclonal IgG1,kappa antibody specific for the low-density lipoprotein (LDL) receptor-binding region of apolipoprotein E (apoE), has been solved by molecular replacement and refined at 1.9 A resolution (PDB entry 12E8). Two 2E8 Fab molecules in the asymmetric unit are related by noncrystallographic symmetry and are hydrogen bonded through a beta-sheet-like intermolecular contact between the heavy-chain complementarity-determining regions 3 (CDRH3) of each molecule. The structure has been refined to an R value of 0.22 (Rfree = 0.27). The initially ill-defined heavy-chain constant domain (CH1) of 2E8 has been retraced with the aid of automatic refinement, confirming the beta-sheet tracing independently of any starting models. As a resolution better than 2 A is not common for Fab fragments, this model represents a well defined Fab structure and should prove useful in MR solution of other Fab fragments. Furthermore, in the absence of an LDL-receptor structure, the homology of the 2E8 CDRH2 to the ligand-binding domain of the LDL receptor has been exploited to model the apoE-LDL-receptor interaction.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Animals
  • Antibodies, Monoclonal / chemistry*
  • Apolipoproteins E / chemistry
  • Apolipoproteins E / immunology*
  • Apolipoproteins E / metabolism
  • Binding Sites
  • Crystallography, X-Ray
  • Electrochemistry
  • Hydrogen Bonding
  • Immunoglobulin Fab Fragments / chemistry*
  • Mice
  • Models, Molecular
  • Protein Conformation
  • Protein Structure, Secondary
  • Receptors, LDL / chemistry
  • Receptors, LDL / metabolism

Substances

  • Antibodies, Monoclonal
  • Apolipoproteins E
  • Immunoglobulin Fab Fragments
  • Receptors, LDL

Associated data

  • PDB/12E8