5MR4

Ligand-receptor complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure and biophysical characterization of the human full-length neurturin-GFRa2 complex: A role for heparan sulfate in signaling.

Sandmark, J.Dahl, G.Oster, L.Xu, B.Johansson, P.Akerud, T.Aagaard, A.Davidsson, P.Bigalke, J.M.Winzell, M.S.Rainey, G.J.Roth, R.G.

(2018) J. Biol. Chem. 293: 5492-5508

  • DOI: 10.1074/jbc.RA117.000820
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Neurturin (NRTN) provides trophic support to neurons and is considered a therapeutic agent for neurodegenerative diseases, such as Parkinson's disease. It binds to its co-receptor GFRa2 and the resulting NRTN:GFRa2 complex activates the transmembrane ...

    Neurturin (NRTN) provides trophic support to neurons and is considered a therapeutic agent for neurodegenerative diseases, such as Parkinson's disease. It binds to its co-receptor GFRa2 and the resulting NRTN:GFRa2 complex activates the transmembrane receptors RET or NCAM. We report the crystal structure of NRTN, alone and in complex with GFRa2. This is the first crystal structure of a GFRa with all three domains and shows that domain 1 does not interact directly with NRTN, but may support an interaction with RET and/or NCAM, via a highly conserved surface. In addition, biophysical results show that the relative concentration of GFRa2 on cell surfaces can affect the functional affinity of NRTN through avidity effects. We have identified a heparan sulfate binding site on NRTN and a putative binding site in GFRa2, suggesting that heparan sulfate has a role in assembly of the signalling complex. We further show that mutant NRTN with reduced affinity for heparan sulfate may provide a route forward for delivery of NRTN with increased exposure in preclinical in vivo models and ultimately to Parkinson's patients.


    Organizational Affiliation

    Structure, Biophysics and Fragment-Based Lead Generation, Discovery Sciences, IMED Biotech Unit, AstraZeneca, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Neurturin
A, B
102Homo sapiensMutation(s): 0 
Gene Names: NRTN
Find proteins for Q99748 (Homo sapiens)
Go to Gene View: NRTN
Go to UniProtKB:  Q99748
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
GDNF family receptor alpha-2
C, D
458Homo sapiensMutation(s): 0 
Gene Names: GFRA2 (GDNFRB, RETL2, TRNR2)
Find proteins for O00451 (Homo sapiens)
Go to Gene View: GFRA2
Go to UniProtKB:  O00451
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FMT
Query on FMT

Download SDF File 
Download CCD File 
C, D
FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
 Ligand Interaction
PEG
Query on PEG

Download SDF File 
Download CCD File 
A
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.195 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 77.810α = 90.00
b = 125.811β = 101.93
c = 82.722γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
REFMACrefinement
Aimlessdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-01-17
    Type: Initial release
  • Version 1.1: 2018-02-14
    Type: Database references
  • Version 1.2: 2018-02-21
    Type: Database references
  • Version 1.3: 2018-04-25
    Type: Data collection, Database references