3MK4

X-Ray structure of human PEX3 in complex with a PEX19 derived peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Insights into peroxisome function from the structure of PEX3 in complex with a soluble fragment of PEX19

Schmidt, F.Treiber, N.Zocher, G.Bjelic, S.Steinmetz, M.O.Kalbacher, H.Stehle, T.Dodt, G.

(2010) J.Biol.Chem. 285: 25410-25417

  • DOI: 10.1074/jbc.M110.138503

  • PubMed Abstract: 
  • The human peroxins PEX3 and PEX19 play a central role in peroxisomal membrane biogenesis. The membrane-anchored PEX3 serves as the receptor for cytosolic PEX19, which in turn recognizes newly synthesized peroxisomal membrane proteins. After deliverin ...

    The human peroxins PEX3 and PEX19 play a central role in peroxisomal membrane biogenesis. The membrane-anchored PEX3 serves as the receptor for cytosolic PEX19, which in turn recognizes newly synthesized peroxisomal membrane proteins. After delivering these proteins to the peroxisomal membrane, PEX19 is recycled to the cytosol. The molecular mechanisms underlying these processes are not well understood. Here, we report the crystal structure of the cytosolic domain of PEX3 in complex with a PEX19-derived peptide. PEX3 adopts a novel fold that is best described as a large helical bundle. A hydrophobic groove at the membrane-distal end of PEX3 engages the PEX19 peptide with nanomolar affinity. Mutagenesis experiments identify phenylalanine 29 in PEX19 as critical for this interaction. Because key PEX3 residues involved in complex formation are highly conserved across species, the observed binding mechanism is of general biological relevance.


    Organizational Affiliation

    Interfaculty Institute for Biochemistry, University of Tübingen, 72076 Tübingen, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peroxisomal biogenesis factor 3
A
334Homo sapiensMutation(s): 1 
Gene Names: PEX3
Find proteins for P56589 (Homo sapiens)
Go to Gene View: PEX3
Go to UniProtKB:  P56589
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Peroxisomal biogenesis factor 19
B
20Homo sapiensMutation(s): 0 
Gene Names: PEX19 (HK33, PXF)
Find proteins for P40855 (Homo sapiens)
Go to Gene View: PEX19
Go to UniProtKB:  P40855
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.194 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 38.470α = 90.00
b = 65.670β = 91.53
c = 61.580γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PHASERphasing
XDSdata reduction
XSCALEdata scaling
MxCuBEdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-06-30
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2013-10-16
    Type: Derived calculations
  • Version 1.3: 2014-02-19
    Type: Database references