1U35

Crystal structure of the nucleosome core particle containing the histone domain of macroH2A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.206 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural characterization of the histone variant macroH2A.

Chakravarthy, S.Gundimella, S.K.Caron, C.Perche, P.Y.Pehrson, J.R.Khochbin, S.Luger, K.

(2005) Mol Cell Biol 25: 7616-7624

  • DOI: 10.1128/MCB.25.17.7616-7624.2005
  • Primary Citation of Related Structures:  
    1U35, 1YD9

  • PubMed Abstract: 
  • macroH2A is an H2A variant with a highly unusual structural organization. It has a C-terminal domain connected to the N-terminal histone domain by a linker. Crystallographic and biochemical studies show that changes in the L1 loop in the histone fold region of macroH2A impact the structure and potentially the function of nucleosomes ...

    macroH2A is an H2A variant with a highly unusual structural organization. It has a C-terminal domain connected to the N-terminal histone domain by a linker. Crystallographic and biochemical studies show that changes in the L1 loop in the histone fold region of macroH2A impact the structure and potentially the function of nucleosomes. The 1.6-A X-ray structure of the nonhistone region reveals an alpha/beta fold which has previously been found in a functionally diverse group of proteins. This region associates with histone deacetylases and affects the acetylation status of nucleosomes containing macroH2A. Thus, the unusual domain structure of macroH2A integrates independent functions that are instrumental in establishing a structurally and functionally unique chromatin domain.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, 80523-1870, USA.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3.1C [auth A], G [auth E]136Mus musculusMutation(s): 0 
Gene Names: 
H3FAH3FCH3FDH3FFH3FHH3FIH3FJH3FKH3FLH3c1...

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Find proteins for P68433 (Mus musculus)
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Hist1h4i proteinD [auth B], H [auth F]103Mus musculusMutation(s): 0 
Gene Names: 
UniProt & NIH Common Fund Data Resources
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IMPC:  MGI:2448443
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
H2A histone familyE [auth C], I [auth G]120Homo sapiensMutation(s): 1 
Gene Names: MACROH2A1H2AFY
UniProt & NIH Common Fund Data Resources
Find proteins for O75367 (Homo sapiens)
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PHAROS:  O75367
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
histone 3, H2baF [auth D], J [auth H]126Mus musculusMutation(s): 0 
Gene Names: Hist3h2ba
UniProt
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  • Reference Sequence
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Entity ID: 1
MoleculeChainsLengthOrganismImage
alpha-satellite DNAA [auth I], B [auth J]146Homo sapiens
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.206 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.505α = 90
b = 109.598β = 90
c = 175.989γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-09-27
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance