4K7D

Crystal Structure of Parkin C-terminal RING domains


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 4K7D

Classification: LIGASE

Total Structure Weight: 112404.62

Macromolecule Entities
Molecule Chains Length Organism Details
E3 ubiquitin-protein ligase parkin A, B, C 330 Rattus norvegicus EC#: 6.3.2 IUBMB
Fragment: C-terminal RING domains (141-465)
Mutation: K348R
Gene Name(s): Park2 Prkn
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C MALONATE ION
C3 H2 O4
OFOBLEOULBTSOW-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, C ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

C CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.184
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 84.70 α = 90.00
b = 106.63 β = 90.00
c = 154.22 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-04-17
  • Released Date: 2013-05-15
  • Deposition author(s): Sauve, V., Trempe, J.-F., Menade, M., Gehring, K.

Revision History

  • Version 1_0: 2013-05-15

    Type: Initial release

  • Version 1_1: 2013-05-22

    Type: Database references

  • Version 1_2: 2013-07-10

    Type: Database references