3NJP

The Extracellular and Transmembrane Domain Interfaces in Epidermal Growth Factor Receptor Signaling


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.304 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.263 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural evidence for loose linkage between ligand binding and kinase activation in the epidermal growth factor receptor.

Lu, C.Mi, L.Z.Grey, M.J.Zhu, J.Graef, E.Yokoyama, S.Springer, T.A.

(2010) Mol.Cell.Biol. 30: 5432-5443

  • DOI: 10.1128/MCB.00742-10

  • PubMed Abstract: 
  • The mechanisms by which signals are transmitted across the plasma membrane to regulate signaling are largely unknown for receptors with single-pass transmembrane domains such as the epidermal growth factor receptor (EGFR). A crystal structure of the ...

    The mechanisms by which signals are transmitted across the plasma membrane to regulate signaling are largely unknown for receptors with single-pass transmembrane domains such as the epidermal growth factor receptor (EGFR). A crystal structure of the extracellular domain of EGFR dimerized by epidermal growth factor (EGF) reveals the extended, rod-like domain IV and a small, hydrophobic domain IV interface compatible with flexibility. The crystal structure and disulfide cross-linking suggest that the 7-residue linker between the extracellular and transmembrane domains is flexible. Disulfide cross-linking of the transmembrane domain shows that EGF stimulates only moderate association in the first two α-helical turns, in contrast to association throughout the membrane over five α-helical turns in glycophorin A and integrin. Furthermore, systematic mutagenesis to leucine and phenylalanine suggests that no specific transmembrane interfaces are required for EGFR kinase activation. These results suggest that linkage between ligand-induced dimerization and tyrosine kinase activation is much looser than was previously envisioned.


    Organizational Affiliation

    Immune Disease Institute and Department of Pathology, Harvard Medical School, 3 Blackfan Circle, Boston, MA 02115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Epidermal growth factor receptor
A, B
614Homo sapiensMutation(s): 0 
Gene Names: EGFR (ERBB, ERBB1, HER1)
EC: 2.7.10.1
Find proteins for P00533 (Homo sapiens)
Go to Gene View: EGFR
Go to UniProtKB:  P00533
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Epidermal growth factor
C, D
47Homo sapiensMutation(s): 0 
Gene Names: EGF
Find proteins for P01133 (Homo sapiens)
Go to Gene View: EGF
Go to UniProtKB:  P01133
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
2PE
Query on 2PE

Download SDF File 
Download CCD File 
B, D
NONAETHYLENE GLYCOL
C18 H38 O10
YZUUTMGDONTGTN-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.304 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.263 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 220.167α = 90.00
b = 220.167β = 90.00
c = 113.123γ = 120.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
PHENIXrefinement
DENZOdata reduction
PHASERphasing
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-10-13
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-08
    Type: Refinement description