4RIQ

Crystal structure of DPY-30 dimerization/docking domain in complex with Ash2L Sdc1-DPY-30 Interacting region (SDI)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.231 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.236 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Molecular Basis for DPY-30 Association to COMPASS-like and NURF Complexes.

Tremblay, V.Zhang, P.Chaturvedi, C.P.Thornton, J.Brunzelle, J.S.Skiniotis, G.Shilatifard, A.Brand, M.Couture, J.F.

(2014) Structure 22: 1821-1830

  • DOI: 10.1016/j.str.2014.10.002

  • PubMed Abstract: 
  • DPY-30 is a subunit of mammalian COMPASS-like complexes (complex of proteins associated with Set1) and regulates global histone H3 Lys-4 trimethylation. Here we report structural evidence showing that the incorporation of DPY-30 into COMPASS-like com ...

    DPY-30 is a subunit of mammalian COMPASS-like complexes (complex of proteins associated with Set1) and regulates global histone H3 Lys-4 trimethylation. Here we report structural evidence showing that the incorporation of DPY-30 into COMPASS-like complexes is mediated by several hydrophobic interactions between an amphipathic α helix located on the C terminus of COMPASS subunit ASH2L and the inner surface of the DPY-30 dimerization/docking (D/D) module. Mutations impairing the interaction between ASH2L and DPY-30 result in a loss of histone H3K4me3 at the β locus control region and cause a delay in erythroid cell terminal differentiation. Using overlay assays, we defined a consensus sequence for DPY-30 binding proteins and found that DPY-30 interacts with BAP18, a subunit of the nucleosome remodeling factor complex. Overall, our results indicate that the ASH2L/DPY-30 complex is important for cell differentiation and provide insights into the ability of DPY-30 to associate with functionally divergent multisubunit complexes.


    Organizational Affiliation

    Ottawa Institute of Systems Biology, Department of Biochemistry, Microbiology and Immunology, University of Ottawa, 451 Smyth Road, Ottawa, ON K1H 8M5, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein dpy-30 homolog
A, B, D, E, G, H, J, K, M, N, P, Q, S, T, V, Z
56Homo sapiensMutation(s): 0 
Gene Names: DPY30
Find proteins for Q9C005 (Homo sapiens)
Go to Gene View: DPY30
Go to UniProtKB:  Q9C005
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Set1/Ash2 histone methyltransferase complex subunit ASH2
C, F, I, L, O, R, U, X
27Homo sapiensMutation(s): 0 
Gene Names: ASH2L (ASH2L1)
Find proteins for Q9UBL3 (Homo sapiens)
Go to Gene View: ASH2L
Go to UniProtKB:  Q9UBL3
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
C, F, I, K, L, O, R, U
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.231 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.236 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 56.270α = 90.08
b = 56.270β = 89.90
c = 95.090γ = 115.39
Software Package:
Software NamePurpose
PHASERphasing
StructureStudiodata collection
d*TREKdata reduction
d*TREKdata scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-12-17
    Type: Initial release