5EGG

Crystal structure of human ubiquitin-conjugating enzyme UBCH5C


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural analysis of recombinant human ubiquitin-conjugating enzyme UbcH5c

Wu, F.Zhu, J.Li, H.Zhu, L.

(2017) Acta Pharm Sin B 7: 390-394

  • DOI: 10.1016/j.apsb.2016.12.008

  • PubMed Abstract: 
  • UbcH5c belongs to the ubiquitin-conjugating enzyme family and plays an important role in catalyzing ubiquitination during TNF-α--triggered NF-κB activation. Therefore, UbcH5c is a potent therapeutic target for the treatment of inflammatory and autoim ...

    UbcH5c belongs to the ubiquitin-conjugating enzyme family and plays an important role in catalyzing ubiquitination during TNF-α--triggered NF-κB activation. Therefore, UbcH5c is a potent therapeutic target for the treatment of inflammatory and autoimmune diseases induced by aberrant activation of NF-κB. In this study, we established a stable expression system for recombinant UbcH5c and solved the crystal structure of UbcH5c belonging to space group P22121 with one molecule in the asymmetric unit. This study provides the basis for further study of UbcH5c including the design of UbcH5c inhibitors.


    Organizational Affiliation

    Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai 200237, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin-conjugating enzyme E2 D3
A
156Homo sapiensMutation(s): 0 
Gene Names: UBE2D3 (UBC5C, UBCH5C)
EC: 2.3.2.23
Find proteins for P61077 (Homo sapiens)
Go to Gene View: UBE2D3
Go to UniProtKB:  P61077
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.206 
  • Space Group: P 2 21 21
Unit Cell:
Length (Å)Angle (°)
a = 28.170α = 90.00
b = 66.280β = 90.00
c = 76.740γ = 90.00
Software Package:
Software NamePurpose
AUTOMARphasing
iMOSFLMdata reduction
PHENIXrefinement
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
the National Natural Science Foundation of ChinaChina81302697

Revision History 

  • Version 1.0: 2016-11-02
    Type: Initial release
  • Version 1.1: 2017-07-26
    Type: Advisory, Database references, Derived calculations