4BM9

Structure of the autoinhibited Parkin catalytic domain

Structural Biology Knowledgebase: 4BM9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.190

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4BM9

Classification: LIGASE

Total Structure Weight: 37724.51

Macromolecule Entities
Molecule Chains Length Organism Details
E3 UBIQUITIN-PROTEIN LIGASE PARKIN A 329 Homo sapiens EC#: 6.3.2 IUBMB
Fragment: UPD AND RBR DOMAIN, RESIDUES 137-465
Gene Name(s): PARK2 Gene View PRKN

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
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)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.190
  • Space Group: H 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 168.42 α = 90.00
b = 168.42 β = 90.00
c = 97.18 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-07
  • Released Date: 2013-06-12
  • Deposition author(s): Wauer, T., Komander, D.

Revision History

  • 2013-08-14
    Type: Citation | Details: JRNL