4RS1

Crystal structure of receptor-cytokine complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.68 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.228 

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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Conformational Changes in the GM-CSF Receptor Suggest a Molecular Mechanism for Affinity Conversion and Receptor Signaling.

Broughton, S.E.Hercus, T.R.Nero, T.L.Dottore, M.McClure, B.J.Dhagat, U.Taing, H.Gorman, M.A.King-Scott, J.Lopez, A.F.Parker, M.W.

(2016) Structure 24: 1271-1281

  • DOI: https://doi.org/10.1016/j.str.2016.05.017
  • Primary Citation of Related Structures:  
    4NKQ, 4RS1

  • PubMed Abstract: 

    The GM-CSF, IL-3, and IL-5 receptors constitute the βc family, playing important roles in inflammation, autoimmunity, and cancer. Typical of heterodimeric type I cytokine receptors, signaling requires recruitment of the shared subunit to the initial cytokine:α subunit binary complex through an affinity conversion mechanism. This critical process is poorly understood due to the paucity of crystal structures of both binary and ternary receptor complexes for the same cytokine. We have now solved the structure of the binary GM-CSF:GMRα complex at 2.8-Å resolution and compared it with the structure of the ternary complex, revealing distinct conformational changes. Guided by these differences we performed mutational and functional studies that, importantly, show GMRα interactions playing a major role in receptor signaling while βc interactions control high-affinity binding. These results support the notion that conformational changes underlie the mechanism of GM-CSF receptor activation and also suggest how related type I cytokine receptors signal.


  • Organizational Affiliation

    ACRF Rational Drug Discovery Centre, St. Vincent's Institute of Medical Research, Fitzroy, VIC 3065, Australia.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Granulocyte-macrophage colony-stimulating factor receptor subunit alphaA [auth B]281Homo sapiensMutation(s): 3 
Gene Names: CSF2RCSF2RACSF2RY
UniProt & NIH Common Fund Data Resources
Find proteins for P15509 (Homo sapiens)
Explore P15509 
Go to UniProtKB:  P15509
PHAROS:  P15509
GTEx:  ENSG00000198223 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15509
Glycosylation
Glycosylation Sites: 2Go to GlyGen: P15509-1
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Granulocyte-macrophage colony-stimulating factorB [auth A]112Homo sapiensMutation(s): 0 
Gene Names: CSF2GMCSF
UniProt & NIH Common Fund Data Resources
Find proteins for P04141 (Homo sapiens)
Explore P04141 
Go to UniProtKB:  P04141
PHAROS:  P04141
GTEx:  ENSG00000164400 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04141
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.68 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.228 
  • Space Group: P 2 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 49.801α = 90
b = 77.169β = 90
c = 117.741γ = 90
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-11-11
    Type: Initial release
  • Version 1.1: 2016-07-27
    Changes: Database references
  • Version 1.2: 2016-09-07
    Changes: Database references
  • Version 1.3: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Database references, Derived calculations, Structure summary