Structural evaluation of EGFR inhibition mechanisms for nanobodies/VHH domains

Structure. 2013 Jul 2;21(7):1214-24. doi: 10.1016/j.str.2013.05.008. Epub 2013 Jun 20.


The epidermal growth factor receptor (EGFR) is implicated in human cancers and is the target of several classes of therapeutic agents, including antibody-based drugs. Here, we describe X-ray crystal structures of the extracellular region of EGFR in complex with three inhibitory nanobodies, the variable domains of heavy chain only antibodies (VHH). VHH domains, the smallest natural antigen-binding modules, are readily engineered for diagnostic and therapeutic applications. All three VHH domains prevent ligand-induced EGFR activation, but use two distinct mechanisms. 7D12 sterically blocks ligand binding to EGFR in a manner similar to that of cetuximab. EgA1 and 9G8 bind an epitope near the EGFR domain II/III junction, preventing receptor conformational changes required for high-affinity ligand binding and dimerization. This epitope is accessible to the convex VHH paratope but inaccessible to the flatter paratope of monoclonal antibodies. Appreciating the modes of binding and inhibition of these VHH domains will aid in developing them for tumor imaging and/or cancer therapy.

Publication types

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

MeSH terms

  • Antibodies, Monoclonal, Humanized / chemistry
  • Antineoplastic Agents / chemistry
  • Binding Sites
  • Binding, Competitive
  • Cetuximab
  • Crystallography, X-Ray
  • Cystine / chemistry
  • ErbB Receptors / antagonists & inhibitors
  • ErbB Receptors / chemistry*
  • ErbB Receptors / metabolism
  • Humans
  • Hydrogen Bonding
  • Hydrophobic and Hydrophilic Interactions
  • Models, Molecular
  • Protein Binding
  • Protein Structure, Tertiary
  • Single-Domain Antibodies / chemistry*
  • Single-Domain Antibodies / metabolism


  • Antibodies, Monoclonal, Humanized
  • Antineoplastic Agents
  • Single-Domain Antibodies
  • Cystine
  • EGFR protein, human
  • ErbB Receptors
  • matuzumab
  • Cetuximab

Associated data

  • PDB/4KRL
  • PDB/4KRM
  • PDB/4KRN
  • PDB/4KRO
  • PDB/4KRP