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

Literature

Macromolecules
Sequence Display for 1NF3

Classification: SIGNALING PROTEIN

Total Structure Weight: 72577.73

Macromolecule Entities
Molecule Chains Length Organism Details
G25K GTP-binding protein, placental isoform A, B 195 Homo sapiens Mutation: Q61L
Gene Name(s): CDC42 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PAR-6B C, D 128 Mus musculus Fragment: GTPase-binding domain
Gene Name(s): Pard6b Par6b
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GNP
Query on GNP

A, B PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GNP N/A in BindingDB
Kd: 50 nM  BindingMOAD
N/A in PDBbind

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 = 41.74 α = 81.55
b = 53.79 β = 76.59
c = 79.52 γ = 90.04

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-12-12
  • Released Date: 2003-03-04
  • Deposition author(s): Garrard, S.M., Capaldo, C.T., Gao, L., Rosen, M.K., Macara, I.G., Tomchick, D.R.

Revision History

  • 2008-04-28
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance