2DZE | pdb_00002dze

Crystal structure of histone chaperone Asf1 in complex with a C-terminus of histone H3

• PDB DOI: https://doi.org/10.2210/pdb2DZE/pdb

• Classification: CHAPERONE
• Organism(s): Schizosaccharomyces pombe, Schizosaccharomyces pombe (strain 972 / ATCC 24843)
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-09-28 Released: 2007-10-16 
• Deposition Author(s): Padmanabhan, B., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.244 (Depositor) 
• R-Value Work: 
  0.214 (Depositor) 
• R-Value Observed: 
  0.215 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of histone chaperone Asf1 in complex with a C-terminus of histone H3

Padmanabhan, B., Yokoyama, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 38.29 kDa 
• Atom Count: 2,858 
• Modeled Residue Count: 326 
• Deposited Residue Count: 332 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone chaperone cia1	A, B	161	Schizosaccharomyces pombe	Mutation(s): 0  Gene Names: cia1
UniProt
Find proteins for O74515 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore O74515  Go to UniProtKB:  O74515

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
10-mer peptide from Histone H3.1/H3.2	C [auth X]	10	N/A	Mutation(s): 0
UniProt
Find proteins for P09988 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore P09988  Go to UniProtKB:  P09988

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGE	D [auth A], E [auth B]	TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.244 (Depositor) 
• R-Value Work:  0.214 (Depositor) 
• R-Value Observed: 0.215 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.155	α = 107.35
b = 52.13	β = 105.94
c = 60.654	γ = 93.95

Software Package:

Software Name	Purpose
REFMAC	refinement
BL26B1	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-10-16 
Deposition Author(s): Padmanabhan, B., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-10-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description