6WW4

Crystal structure of HERC2 ZZ domain in complex with histone H3 tail


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.199 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural Insight into Binding of the ZZ Domain of HERC2 to Histone H3 and SUMO1.

Liu, J.Xue, Z.Zhang, Y.Vann, K.R.Shi, X.Kutateladze, T.G.

(2020) Structure 28: 1225-1230.e3

  • DOI: 10.1016/j.str.2020.07.003
  • Primary Citation of Related Structures:  
    6WW3, 6WW4

  • PubMed Abstract: 
  • Human ubiquitin ligase HERC2, a component of the DNA repair machinery, has been linked to neurological diseases and cancer. Here, we show that the ZZ domain of HERC2 (HERC2 ZZ ) binds to histone H3 tail and tolerates posttranslational modifications commonly present in H3 ...

    Human ubiquitin ligase HERC2, a component of the DNA repair machinery, has been linked to neurological diseases and cancer. Here, we show that the ZZ domain of HERC2 (HERC2 ZZ ) binds to histone H3 tail and tolerates posttranslational modifications commonly present in H3. The crystal structure of the HERC2 ZZ :H3 complex provides the molecular basis for this interaction and highlights a critical role of the negatively charged site of HERC2 ZZ in capturing of A1 of H3. NMR, mutagenesis, and fluorescence data reveal that HERC2 ZZ binds to H3 and the N-terminal tail of SUMO1, a previously reported ligand of HERC2 ZZ , with comparable affinities. Like H3, the N-terminal tail of SUMO1 occupies the same negatively charged site of HERC2 ZZ in the crystal structure of the complex, although in contrast to H3 it adopts an α-helical conformation. Our data suggest that HERC2 ZZ may play a role in mediating the association of HERC2 with chromatin.


    Organizational Affiliation

    Department of Pharmacology, University of Colorado School of Medicine, Aurora, CO 80045, USA. Electronic address: tatiana.kutateladze@cuanschutz.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3.1,E3 ubiquitin-protein ligase HERC2B [auth A], A [auth B]56Homo sapiensMutation(s): 0 
Gene Names: 
EC: 2.3.2.26
UniProt & NIH Common Fund Data Resources
Find proteins for O95714 (Homo sapiens)
Explore O95714 
Go to UniProtKB:  O95714
PHAROS:  O95714
Find proteins for P68431 (Homo sapiens)
Explore P68431 
Go to UniProtKB:  P68431
PHAROS:  P68431
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.199 
  • R-Value Observed: 0.203 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 24.933α = 90
b = 76.439β = 102.52
c = 33.012γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
autoXDSdata scaling
PDB_EXTRACTdata extraction
autoXDSdata reduction
MOLREPphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-08-05
    Type: Initial release
  • Version 1.1: 2020-08-12
    Changes: Database references
  • Version 1.2: 2020-11-11
    Changes: Database references