3B1L

Crystal Structure of parkin ubiquitin-like domain R33Q mutant

• PDB DOI: https://doi.org/10.2210/pdb3B1L/pdb

• Classification: LIGASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2011-07-04 Released: 2012-07-04 
• Deposition Author(s): Tomoo, K., Ikemiya, A., Amami, Y., In, Y., Ishida, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.243 
• R-Value Work: 0.189 
• R-Value Observed: 0.191 

Literature

Crystal Structure of parkin ubiquitin-like domain R33Q mutant

Tomoo, K., Ikemiya, A., Amami, Y., In, Y., Ishida, T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 8.7 kDa 
• Atom Count: 645 
• Modelled Residue Count: 76 
• Deposited Residue Count: 76 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E3 ubiquitin-protein ligase parkin	A [auth X]	76	Mus musculus	Mutation(s): 1  EC: 6.3.2
UniProt
Find proteins for Q9WVS6 (Mus musculus) Explore Q9WVS6  Go to UniProtKB:  Q9WVS6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.243 
• R-Value Work: 0.189 
• R-Value Observed: 0.191 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.79	α = 90
b = 45.79	β = 90
c = 65.98	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-07-04 
Deposition Author(s): Tomoo, K., Ikemiya, A., Amami, Y., In, Y., Ishida, T.

Revision History  

• Version 1.0: 2012-07-04
  Type: Initial release
  
• Version 1.1: 2018-07-25
  Changes: Data collection, Source and taxonomy, Structure summary
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references