1HCF

Crystal structure of TrkB-d5 bound to neurotrophin-4/5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Specificity in Trk-Receptor:Neurotrophin Interaction: The Crystal Structure of Trkb-D5 in Complex with Neurotrophin-4/5

Banfield, M.J.Naylor, R.L.Robertson, A.G.S.Allen, S.J.Dawbarn, D.Brady, R.L.

(2001) Structure 9: 1191

  • DOI: 10.1016/s0969-2126(01)00681-5
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The binding of neurotrophin ligands to their respective Trk cellular receptors initiates intracellular signals essential for the growth and survival of neurons. The site of neurotrophin binding has been located to the fifth extracellular domain of th ...

    The binding of neurotrophin ligands to their respective Trk cellular receptors initiates intracellular signals essential for the growth and survival of neurons. The site of neurotrophin binding has been located to the fifth extracellular domain of the Trk receptor, with this region regulating both the affinity and specificity of Trk receptor:neurotrophin interaction. Neurotrophin function has been implicated in a number of neurological disorders, including Alzheimer's disease and Parkinson's disease.


    Related Citations: 
    • Identification and Structure of the Nerve Growth Factor Binding Site on Trka
      Robertson, A.G.S., Banfield, M.J., Allen, S.J., Dando, J.A., Mason, G.G.F., Tyler, S.J., Bennett, G.S., Brain, S.D., Clarke, A.R., Brady, R.L., Dawbarn, D.
      (2001) Biochem Biophys Res Commun 282: 131
    • Crystal Structure of Nerve Growth Factor in Complex with the Ligand-Binding Domain of the Trka Receptor
      Wiesmann, C., Ultsch, M.H., Bass, S.H., Devos, A.M.
      (1999) Nature 401: 184
    • Crystal Structures of the Neurotrophin Binding Domain of Trka, Trkb and Trkc
      Ultsch, M.H., Wiesmann, C., Simmons, L.C., Henrich, J., Yang, M., Reilly, D., Bass, S.H., Devos, A.M.
      (1999) J Mol Biol 290: 149
    • The Structures of Neurotrophin 4 Homodimer and the Brain-Derived Neurotrophic Factor/Neurotrophin 4 Heterodimer Reveal a Common Trk Binding Site
      Robinson, R.C., Radziejewski, C., Spraggon, G., Greenwald, J., Kostura, M.R., Burtnick, L.D., Stuart, D.I., Choe, S., Jones, E.Y.
      (1999) Protein Sci 8: 2589

    Organizational Affiliation

    Department of Biochemistry, University of Bristol, Bristol BS8 1TD, United Kingdom.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NEUROTROPHIN-4
A, B
130Homo sapiensMutation(s): 0 
Gene Names: NTF4NTF5
Find proteins for P34130 (Homo sapiens)
Go to UniProtKB:  P34130
NIH Common Fund Data Resources
PHAROS  P34130

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
BDNF/NT-3 GROWTH FACTORS RECEPTOR
X, Y
101Homo sapiensMutation(s): 0 
Gene Names: NTRK2TRKB
EC: 2.7.10.1
Find proteins for Q16620 (Homo sapiens)
Go to UniProtKB:  Q16620
NIH Common Fund Data Resources
PHAROS  Q16620
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.218 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.372α = 90
b = 80.406β = 90
c = 91.318γ = 90
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-12-06
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance