1NF3

Structure of Cdc42 in a complex with the GTPase-binding domain of the cell polarity protein, Par6


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.219 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of Cdc42 in a complex with the GTPase-binding domain of the cell polarity protein, Par6

Garrard, S.M.Capaldo, C.T.Gao, L.Rosen, M.K.Macara, I.G.Tomchick, D.R.

(2003) Embo J. 22: 1125-1133

  • DOI: 10.1093/emboj/cdg110

  • PubMed Abstract: 
  • Cdc42 is a small GTPase that is required for cell polarity establishment in eukaryotes as diverse as budding yeast and mammals. Par6 is also implicated in metazoan cell polarity establishment and asymmetric cell divisions. Cdc42.GTP interacts with pr ...

    Cdc42 is a small GTPase that is required for cell polarity establishment in eukaryotes as diverse as budding yeast and mammals. Par6 is also implicated in metazoan cell polarity establishment and asymmetric cell divisions. Cdc42.GTP interacts with proteins that contain a conserved sequence called a CRIB motif. Uniquely, Par6 possesses a semi-CRIB motif that is not sufficient for binding to Cdc42. An adjacent PDZ domain is also necessary and is required for biological effects of Par6. Here we report the crystal structure of a complex between Cdc42 and the Par6 GTPase-binding domain. The semi-CRIB motif forms a beta-strand that inserts between the four strands of Cdc42 and the three strands of the PDZ domain to form a continuous eight-stranded sheet. Cdc42 induces a conformational change in Par6, detectable by fluorescence resonance energy transfer spectroscopy. Nuclear magnetic resonance studies indicate that the semi-CRIB motif of Par6 is at least partially structured by the PDZ domain. The structure highlights a novel role for a PDZ domain as a structural scaffold.


    Related Citations: 
    • The cell-polarity protein Par6 links Par3 and atypical protein kinase C to Cdc42
      Joberty, G.,Petersen, C.,Gao, L.,Macara, I.G.
      (2000) Nat.Cell Biol. 2: 531
    • A human homolog of the C. elegans polarity determinant Par-6 links Rac and Cdc42 to PKCzeta signaling and cell transformation
      Qiu, R.G.,Abo, A.,Steven Martin, G.
      (2000) Curr.Biol. 10: 697
    • A mammalian Par-3-Par-6 complex implicated in Cdc42/Rac1 and aPKC signalling and cell polarity
      Lin, D.,Edwards, A.S.,Fawcett, J.P.,Mbamalu, G.,Scott, J.D.,Pawson, T.
      (2000) Nat.Cell Biol. 2: 540
    • Assembly of epithelial tight junctions is negatively regulated by Par6
      Gao, L.,Joberty, G.,Macara, I.G.
      (2002) Curr.Biol. 12: 221
    • Par-6, a gene involved in the establishment of asymmetry in early C. elegans embryos, mediates the asymmetric localization of Par-3
      Watts, J.L.,Etemad-Moghadam, B.,Guo, S.,Boyd, L.,Draper, B.W.,Mello, C.C.,Priess, J.R.,Kemphues, K.J.
      (1996) DEVELOPMENT 122: 3133


    Organizational Affiliation

    Center for Cell Signaling and Department of Microbiology, University of Virginia, Charlottesville, VA 22908, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
G25K GTP-binding protein, placental isoform
A, B
195Homo sapiensGene Names: CDC42
Find proteins for P60953 (Homo sapiens)
Go to Gene View: CDC42
Go to UniProtKB:  P60953
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PAR-6B
C, D
128Mus musculusGene Names: Pard6b (Par6b)
Find proteins for Q9JK83 (Mus musculus)
Go to UniProtKB:  Q9JK83
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
GNP
Query on GNP

Download SDF File 
Download CCD File 
A, B
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
GNPKd: 50 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.219 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 41.744α = 81.55
b = 53.787β = 76.59
c = 79.521γ = 90.04
Software Package:
Software NamePurpose
HKL-2000data reduction
CNSrefinement
HKL-2000data collection
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-03-04
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance