2D9Q

Crystal Structure of the Human GCSF-Receptor Signaling Complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.251 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Literature

Homodimeric cross-over structure of the human granulocyte colony-stimulating factor (GCSF) receptor signaling complex

Tamada, T., Honjo, E., Maeda, Y., Okamoto, T., Ishibashi, M., Tokunaga, M., Kuroki, R.

(2006) Proc.Natl.Acad.Sci.Usa 103: 3135-3140

  • DOI: 10.1073/pnas.0511264103

  • PubMed Abstract: 

    • A crystal structure of the signaling complex between human granulocyte colony-stimulating factor (GCSF) and a ligand binding region of GCSF receptor (GCSF-R), has been determined to 2.8 A resolution. The GCSF:GCSF-R complex formed a 2:2 stoichiometry ...

    A crystal structure of the signaling complex between human granulocyte colony-stimulating factor (GCSF) and a ligand binding region of GCSF receptor (GCSF-R), has been determined to 2.8 A resolution. The GCSF:GCSF-R complex formed a 2:2 stoichiometry by means of a cross-over interaction between the Ig-like domains of GCSF-R and GCSF. The conformation of the complex is quite different from that between human GCSF and the cytokine receptor homologous domain of mouse GCSF-R, but similar to that of the IL-6/gp130 signaling complex. The Ig-like domain cross-over structure necessary for GCSF-R activation is consistent with previously reported thermodynamic and mutational analyses.

    Related Citations: 
    • Thermodynamic analysis of the activation mechanism of the GCSF receptor induced by ligand binding
      Mine, S.,Koshiba, T.,Honjo, E.,Okamoto, T.,Tamada, T.,Maeda, Y.,Matsukura, Y.,Horie, A.,Ishibashi, M.,Sato, M.,Azuma, M.,Tokunaga, M.,Nitta, K.,Kuroki, R.
      (2004) Biochemistry 43: 2458
    • Crystallization of a 2:2 complex of granulocyte-colony stimulating factor (GCSF) with the ligand-binding region of the GCSF receptor
      Honjo, E.,Tamada, T.,Meada, Y.,Koshiba, T.,Matsukura, Y.,Okamoto, T.,Ishibashi, M.,Tokunaga, M.,Kuroki, R.
      (2005) ACTA CRYSTALLOGR.,SECT.F 61: 788

    Organizational Affiliation: 

    Research Group for Molecular Structural Biology, Quantum Beam Science Directorate, Japan Atomic Energy Agency, Tokai, Ibaraki.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CSF3
A
174Homo sapiensMutation(s): 0 
Gene Names: CSF3 (C17orf33, GCSF)
Find proteins for P09919 (Homo sapiens)
Go to Gene View: CSF3
Go to UniProtKB:  P09919
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Granulocyte colony-stimulating factor receptor
B
313Homo sapiensMutation(s): 3 
Gene Names: CSF3R (GCSFR)
Find proteins for Q99062 (Homo sapiens)
Go to Gene View: CSF3R
Go to UniProtKB:  Q99062
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG
Download SDF File 
Download CCD File 
B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.251 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 134.777α = 90.00
b = 134.777β = 90.00
c = 105.468γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
SHARPphasing
PHASERphasing
HKL-2000data reduction
SCALEPACKdata scaling
MLPHAREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2005-12-12 
  • Released Date: 2006-02-07 
  • Deposition Author(s): Tamada, T., Kuroki, R.

Revision History 

  • Version 1.0: 2006-02-07
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Non-polymer description, Version format compliance