N-terminal domain of the human tumor suppressor ING5 C19S mutant

Experimental Data Snapshot

  • Resolution: 3.10 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.215 
  • R-Value Observed: 0.217 

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The Tumor Suppressor ING5 Is a Dimeric, Bivalent Recognition Molecule of the Histone H3K4me3 Mark.

Ormaza, G.Rodriguez, J.A.Ibanez de Opakua, A.Merino, N.Villate, M.Gorrono, I.Rabano, M.Palmero, I.Vilaseca, M.Kypta, R.Vivanco, M.D.M.Rojas, A.L.Blanco, F.J.

(2019) J Mol Biol 431: 2298-2319

  • DOI: https://doi.org/10.1016/j.jmb.2019.04.018
  • Primary Citation of Related Structures:  
    5ME8, 5MTO

  • PubMed Abstract: 

    The INhibitor of Growth (ING) family of tumor suppressors regulates the transcriptional state of chromatin by recruiting remodeling complexes to sites with histone H3 trimethylated at lysine 4 (H3K4me3). This modification is recognized by the plant homeodomain (PHD) present at the C-terminus of the five ING proteins. ING5 facilitates histone H3 acetylation by the HBO1 complex, and also H4 acetylation by the MOZ/MORF complex. We show that ING5 forms homodimers through its N-terminal domain, which folds independently into an elongated coiled-coil structure. The central region of ING5, which contains the nuclear localization sequence, is flexible and disordered, but it binds dsDNA with micromolar affinity. NMR analysis of the full-length protein reveals that the two PHD fingers of the dimer are chemically equivalent and independent of the rest of the molecule, and they bind H3K4me3 in the same way as the isolated PHD. We have observed that ING5 can form heterodimers with the highly homologous ING4, and that two of three primary tumor-associated mutants in the N-terminal domain strongly destabilize the coiled-coil structure. They also affect cell proliferation and cell cycle phase distribution, suggesting a driver role in cancer progression.

  • Organizational Affiliation

    CIC bioGUNE, Parque Tecnológico de Bizkaia, 48160 Derio, Spain.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Inhibitor of growth protein 5
A, B
107Homo sapiensMutation(s): 1 
Gene Names: ING5
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WYH8 (Homo sapiens)
Explore Q8WYH8 
Go to UniProtKB:  Q8WYH8
GTEx:  ENSG00000168395 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8WYH8
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.10 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.215 
  • R-Value Observed: 0.217 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 140.94α = 90
b = 140.94β = 90
c = 92.323γ = 120
Software Package:
Software NamePurpose
SCALAdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-02-28
    Type: Initial release
  • Version 1.1: 2019-06-26
    Changes: Data collection, Database references
  • Version 1.2: 2024-01-17
    Changes: Data collection, Database references, Refinement description