6P5L

Crystal Structure of Ubl123 with an EZH2 peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.236 

wwPDB Validation 3D Report Full Report



Literature

Structural Basis of the Interaction Between Ubiquitin Specific Protease 7 and Enhancer of Zeste Homolog 2.

Gagarina, V.Bojagora, A.Lacdao, I.K.Luthra, N.Pfoh, R.Mohseni, S.Chaharlangi, D.Tan, N.Saridakis, V.

(2020) J Mol Biol 432: 897-912

  • DOI: 10.1016/j.jmb.2019.12.026
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • USP7 is a deubiquitinase that regulates many diverse cellular processes, including tumor suppression, epigenetics, and genome stability. Several substrates, including GMPS, UHRF1, and ICP0, were shown to bear a specific KxxxK motif that interacts wit ...

    USP7 is a deubiquitinase that regulates many diverse cellular processes, including tumor suppression, epigenetics, and genome stability. Several substrates, including GMPS, UHRF1, and ICP0, were shown to bear a specific KxxxK motif that interacts within the C-terminal region of USP7. We identified a similar motif in Enhancer of Zeste 2 (EZH2), the histone methyltransferase found within Polycomb Repressive Complex 2 (PRC2). PRC2 is responsible for the methylation of Histone 3 Lys27 (H3K27) leading to gene silencing. GST pull-down and coimmunoprecipitation experiments showed that USP7 interacts with EZH2. We determined the structural basis of interaction between USP7 and EZH2 and identified residues mediating the interaction. Mutations in these critical residues disrupted the interaction between USP7 and EZH2. Furthermore, USP7 silencing and knockout experiments showed decreased EZH2 levels in HCT116 carcinoma cells. Finally, we demonstrated decreased H3K27Me3 levels in HCT116 USP7 knockout cells. These results indicate that USP7 interacts with EZH2 and regulates both its stability and function.


    Organizational Affiliation

    Department of Biology, York University, 4700 Keele Street, Toronto, Ontario, M3J1P3, Canada. Electronic address: vsaridak@yorku.ca.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin carboxyl-terminal hydrolase 7
A, B
356Homo sapiensMutation(s): 0 
Gene Names: USP7HAUSP
EC: 3.4.19.12
Find proteins for Q93009 (Homo sapiens)
Go to UniProtKB:  Q93009
NIH Common Fund Data Resources
PHAROS  Q93009
Protein Feature View
  • Reference Sequence
  • Find similar proteins by: Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PRO-ARG-LYS-LYS-LYS-ARG-LYS-HIS
D
8Homo sapiensMutation(s): 0 
Protein Feature View
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.236 
  • Space Group: P 42 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 165.452α = 90
b = 165.452β = 90
c = 110.9γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2019-05-30 
  • Released Date: 2020-05-06 
  • Deposition Author(s): Saridakis, V.

Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)Canada106583

Revision History 

  • Version 1.0: 2020-05-06
    Type: Initial release