1A4R

G12V MUTANT OF HUMAN PLACENTAL CDC42 GTPASE IN THE GDP FORM

Structural Biology Knowledgebase: 1A4R SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.228

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1A4R

Classification: HYDROLASE

Total Structure Weight: 43561.38

Macromolecule Entities
Molecule Chains Length Organism Details
G25K GTP-BINDING PROTEIN A, B 191 Homo sapiens Mutation: G12V
Gene Name(s): CDC42 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GNH
Query on GNH

B AMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H16 N6 O10 P2
ZGPDMUBRWRJAQQ-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GDP N/A in BindingDB
Kd: 0.0094 nM  BindingMOAD

GNH N/A in BindingDB
Kd: 220 nM  BindingMOAD
Kd: 220 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.228
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 98.65 α = 90.00
b = 98.65 β = 90.00
c = 104.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-02-02
  • Released Date: 1999-03-02
  • Deposition author(s): Rudolph, M.G., Vetter, I.R., Wittinghofer, A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4