Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 21.98 kDa 
• Atom Count: 1466 
• Modelled Residue Count: 178 
• Deposited Residue Count: 200 
• Unique protein chains: 1

1H0X

Structure of Alba: an archaeal chromatin protein modulated by acetylation

• PDB DOI: 10.2210/pdb1H0X/pdb

• Classification: DNA BINDING
• Organism(s): Saccharolobus solfataricus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2002-07-01 Released: 2002-09-05 
• Deposition Author(s): Wardleworth, B.N., Russell, R.J.M., Bell, S.D., Taylor, G.L., White, M.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.285 
• R-Value Work: 0.235 
• R-Value Observed: 0.235 

Literature

Structure of Alba: An Archaeal Chromatin Protein Modulated by Acetylation

Wardleworth, B.N., Russell, R.J.M., Bell, S.D., Taylor, G.L., White, M.F.

(2002) EMBO J 21: 4654

• PubMed: 12198167 
• DOI: 10.1093/emboj/cdf465
• Primary Citation of Related Structures:  
  1H0X, 1H0Y


• PubMed Abstract: 
  

Eukaryotic DNA is packaged into nucleosomes that regulate the accessibility of the genome to replication, transcription and repair factors. Chromatin accessibility is controlled by histone modifications including acetylation and methylation. Archaea possess eukary otic-like machineries for DNA replication, transcription and information processing. The conserved archaeal DNA binding protein Alba (formerly Sso10b) interacts with the silencing protein Sir2, which regulates Alba's DNA binding affinity by deacetylation of a lysine residue. We present the crystal structure of Alba from Sulfolobus solfataricus at 2.6 A resolution (PDB code 1h0x). The fold is reminiscent of the N-terminal DNA binding domain of DNase I and the C-terminal domain of initiation factor IF3. The Alba dimer has two extended beta-hairpins flanking a central body containing the acetylated lysine, Lys16, suggesting three main points of contact with the DNA. Fluorescence, calorimetry and electrophoresis data suggest a final binding stoichiometry of approximately 5 bp DNA per Alba dimer. We present a model for the Alba-DNA interaction consistent with the available structural, biophysical and electron microscopy data.

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Related Citations: 

• The Interaction of Alba, a Conserved Archaeal Chromatin Protein, with Sir2 and its Regulation by Acetylation
  Bell, S.D., Botting, C.H., Wardleworth, B.N., Jackson, S.P., White, M.F.
  (2002) Science 296: 148

• Preliminary Crystallographic Studies of the Double-Stranded DNA Binding Protein Sso10B from Sulfolobus Solfataricus
  Wardleworth, B.N., Russell, R.J.M., White, M.F., Taylor, G.L.
  (2001) Acta Crystallogr D Biol Crystallogr 57: 1893

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Organizational Affiliation: 

Centre for Biomolecular Science, St Andrews University, North Haugh, St Andrews, Fife KY16 9ST, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA BINDING PROTEIN SSO10B	A, B	100	Saccharolobus solfataricus	Mutation(s): 0
UniProt
Find proteins for P60849 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)) Explore P60849  Go to UniProtKB:  P60849

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.285 
• R-Value Work: 0.235 
• R-Value Observed: 0.235 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.31	α = 90
b = 84.31	β = 90
c = 162.22	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-07-01 
• Released Date: 2002-09-05 
Deposition Author(s): Wardleworth, B.N., Russell, R.J.M., Bell, S.D., Taylor, G.L., White, M.F.

Revision History  

• Version 1.0: 2002-09-05
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance