2W83

CRYSTAL STRUCTURE OF THE ARF6 GTPASE IN COMPLEX WITH A SPECIFIC EFFECTOR, JIP4

Structural Biology Knowledgebase: 2W83 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.214

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2W83

Classification: PROTEIN TRANSPORT

Total Structure Weight: 76992.59

Macromolecule Entities
Molecule Chains Length Organism Details
ADP-RIBOSYLATION FACTOR 6 A, B, E 165 Homo sapiens Fragment: G DOMAIN, RESIDUES 13-175
Mutation: Q67L
Details: 12 RESIDUES N-TERMINAL DELETION
Gene Name(s): ARF6 Gene View
C-JUN-AMINO-TERMINAL KINASE-INTERACTING PROTEIN 4 C, D 77 Homo sapiens Fragment: LEUCINE ZIPPER II, RESIDUES 392-462
Gene Name(s): SPAG9 Gene View HSS KIAA0516 MAPK8IP4 SYD1 HLC6

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GTP
Query on GTP

A, B, E GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DIO
Query on DIO

A, C, E 1,4-DIETHYLENE DIOXIDE
C4 H8 O2
RYHBNJHYFVUHQT-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, E MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.214
  • Space Group: P 62 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 137.27 α = 90.00
b = 137.27 β = 90.00
c = 165.03 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-01-08
  • Released Date: 2009-07-14
  • Deposition author(s): Isabet, T., Montagnac, G., Regazzoni, K., Raynal, B., El Khadali, F., Franco, M., England, P., Chavrier, P., Houdusse, A., Menetrey, J.

Revision History

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