4YON Protein Binding date Mar 12, 2015
title P-Rex1:Rac1 Complex
authors C.M.Lucato, J.C.Whisstock, A.M.Ellisdon
compound source
Molecule: Phosphatidylinositol 3,4,5-Trisphosphate-Dependen Exchanger 1 Protein;
Chain: A
Fragment: Unp Residues 1-404
Synonym: Ptdins(3,4,5)-Dependent Rac Exchanger 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Prex1, Kiaa1415
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Ras-Related C3 Botulinum Toxin Substrate 1
Chain: B
Fragment: Unp Residues 1-177
Synonym: Cell Migration-Inducing Gene 5 Protein,Ras-Like Pr Tc25,P21-Rac1;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rac1, Tc25, Mig5
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 2 2 21
R_factor 0.162 R_Free 0.183
length a length b length c angle alpha angle beta angle gamma
94.510 111.250 158.120 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å


Primary referenceThe Phosphatidylinositol (3,4,5)-trisphosphate-dependent Rac Exchanger 1:Ras-related C3 Botulinum Toxin Substrate 1 (P-Rex1:Rac1) Complex Reveals the Basis of Rac1 Activation in Breast Cancer Cells., Lucato CM, Halls ML, Ooms LM, Liu HJ, Mitchell CA, Whisstock JC, Ellisdon AM, J Biol Chem. 2015 Jun 24. pii: jbc.M115.660456. PMID:26112412
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (198 Kb) [Save to disk]
  • Biological Unit Coordinates (4yon.pdb1.gz) 189 Kb
  • CSU: Contacts of Structural Units for 4YON
  • Structure Factors (625 Kb)
  • Retrieve 4YON in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YON from S2C, [Save to disk]
  • Re-refined 4yon structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4YON in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4YON
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 4yon from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yon_A] [4yon_B] [4yon]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4YON: [PH] [RHO] [RhoGEF ] by SMART
  • Other resources with information on 4YON
  • Community annotation for 4YON at PDBWiki (http://pdbwiki.org)

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