4WZ3

Crystal structure of the complex between LubX/LegU2/Lpp2887 U-box 1 and Homo sapiens UBE2D2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.167

Literature

Macromolecules
Sequence Display for 4WZ3

Classification: LIGASE

Total Structure Weight: 41614.30

Macromolecule Entities
Molecule Chains Length Organism Details
Ubiquitin-conjugating enzyme E2 D2 A 148 Homo sapiens EC#: 2.3.2.23 IUBMB
Mutation: C85S
Gene Name(s): UBE2D2 Gene View PUBC1 UBC4 UBC5B UBCH4 UBCH5B
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
E3 ubiquitin-protein ligase LubX B 215 Legionella pneumophila EC#: 6.3.2 IUBMB
Gene Name(s): lubX lpp2887
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 119.29 α = 90.00
b = 119.29 β = 90.00
c = 49.81 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-11-18
  • Released Date: 2015-01-07
  • Deposition author(s): Stogios, P.J., Quaile, A.T., Skarina, T., Nocek, B., Di Leo, R., Yim, V., Savchenko, A., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

  • Version 1_0: 2015-01-07

    Type: Initial release

  • Version 1_1: 2015-02-04

    Type: Derived calculations

  • Version 1_2: 2015-07-29

    Type: Database references

  • Version 1_3: 2015-08-19

    Type: Derived calculations

  • Version 1_4: 2017-09-20

    Type: Author supporting evidence, Derived calculations