2HIO | pdb_00002hio

HISTONE OCTAMER (CHICKEN), CHROMOSOMAL PROTEIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Observed: 
    0.255 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 2HIO

This is version 1.3 of the entry. See complete history

Literature

The nucleosomal core histone octamer at 3.1 A resolution: a tripartite protein assembly and a left-handed superhelix.

Arents, G.Burlingame, R.W.Wang, B.C.Love, W.E.Moudrianakis, E.N.

(1991) Proc Natl Acad Sci U S A 88: 10148-10152

  • DOI: https://doi.org/10.1073/pnas.88.22.10148
  • Primary Citation Related Structures: 
    1HIO, 2HIO

  • PubMed Abstract: 

    The structure of the octameric histone core of the nucleosome has been determined by x-ray crystallography to a resolution of 3.1 A. The histone octamer is a tripartite assembly in which a centrally located (H3-H4)2 tetramer is flanked by two H2A-H2B dimers. It has a complex outer surface; depending on the perspective, the structure appears as a wedge or as a flat disk. The disk represents the planar projection of a left-handed proteinaceous superhelix with approximately 28 A pitch. The diameter of the particle is 65 A and the length is 60 A at its maximum and approximately 10 A at its minimum extension; these dimensions are in agreement with those reported earlier by Klug et al. [Klug, A., Rhodes, D., Smith, J., Finch, J. T. & Thomas, J. O. (1980) Nature (London) 287, 509-516]. The folded histone chains are elongated rather than globular and are assembled in a characteristic "handshake" motif. The individual polypeptides share a common central structural element of the helix-loop-helix type, which we name the histone fold.


  • Organizational Affiliation
    • Department of Biology, Johns Hopkins University, Baltimore, MD 21218.

Macromolecule Content 

  • Total Structure Weight: 54.55 kDa 
  • Atom Count: 2,850 
  • Modeled Residue Count: 362 
  • Deposited Residue Count: 492 
  • Unique protein chains: 4

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
PROTEIN (HISTONE H2A)128Gallus gallusMutation(s): 0 
UniProt
Find proteins for P02263 (Gallus gallus)
Explore P02263 
Go to UniProtKB:  P02263
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02263
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
PROTEIN (HISTONE H2B)125Gallus gallusMutation(s): 0 
UniProt
Find proteins for P0C1H5 (Gallus gallus)
Explore P0C1H5 
Go to UniProtKB:  P0C1H5
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0C1H5
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
PROTEIN (HISTONE H3)136Gallus gallusMutation(s): 0 
UniProt
Find proteins for P84229 (Gallus gallus)
Explore P84229 
Go to UniProtKB:  P84229
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP84229
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
PROTEIN (HISTONE H4)103Gallus gallusMutation(s): 0 
UniProt
Find proteins for P62801 (Gallus gallus)
Explore P62801 
Go to UniProtKB:  P62801
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62801
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Observed: 0.255 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 118.82α = 90
b = 118.82β = 90
c = 102.93γ = 120
Software Package:
Software NamePurpose
PROFFTrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-01-12
    Type: Initial release
  • Version 1.1: 2008-04-26
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2023-12-27
    Changes: Data collection, Database references