Heterochromatin protein Sir3 induces contacts between the amino terminus of histone H4 and nucleosomal DNA.

Wang, F; Li, G; Altaf, M; Lu, C; Currie, M.A; Johnson, A; Moazed, D.

Macromolecule Content

Unique protein chains: 5
Unique nucleic acid chains: 2

4JJN

Crystal structure of heterochromatin protein Sir3 in complex with a silenced yeast nucleosome

DOI: 10.2210/pdb4jjn/pdb
NDB: NA2287

Classification: DNA BINDING PROTEIN / DNA
Deposited: 2013-03-08 Released: 2013-05-15
Deposition author(s): Wang, F., Li, G., Mohammed, A., Lu, C., Currie, M., Johnson, A., Moazed, D.
Organism: Saccharomyces cerevisiae
Expression System: Escherichia coli
Mutation(s): 1

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.09 Å
R-Value Free: 0.255
R-Value Work: 0.231

wwPDB Validation 3D Report Full Report

Literature

Macromolecules

Classification: DNA BINDING PROTEIN / DNA

Total Structure Weight: 287138.25

Macromolecule Entities
Molecule	Chains	Length	Organism	Details
Histone H3	A, E	135	Saccharomyces cerevisiae	Gene Name(s): HHT1 YBR010W YBR0201 HHT2 SIN2 YNL031C N2749
Metabolic Pathways Maps: Reactions: ESCHER BiGG
Protein Feature View - UniProtKB AC: P61830 UniProt Full Protein Feature View for P61830 Find similar proteins by: Sequence \| Structure Show Detailed Protein Feature View for P61830/4JJN
Histone H4	B, F	102	Saccharomyces cerevisiae	Gene Name(s): HHF1 YBR009C YBR0122 HHF2 YNL030W N2752
Metabolic Pathways Maps: Reactions: ESCHER BiGG
Protein Feature View - UniProtKB AC: P02309 UniProt Full Protein Feature View for P02309 Find similar proteins by: Sequence \| Structure Show Detailed Protein Feature View for P02309/4JJN
Histone H2A.2	C, G	131	Saccharomyces cerevisiae	Gene Name(s): HTA2 H2A2 YBL003C YBL0103
Metabolic Pathways Maps: Reactions: ESCHER BiGG
Protein Feature View - UniProtKB AC: P04912 UniProt Full Protein Feature View for P04912 Find similar proteins by: Sequence \| Structure Show Detailed Protein Feature View for P04912/4JJN
Histone H2B.2	D, H	130	Saccharomyces cerevisiae	Gene Name(s): HTB2 H2B2 YBL002W YBL0104
Metabolic Pathways Maps: Reactions: ESCHER BiGG
Protein Feature View - UniProtKB AC: P02294 UniProt Full Protein Feature View for P02294 Find similar proteins by: Sequence \| Structure Show Detailed Protein Feature View for P02294/4JJN
Regulatory protein SIR3	K, L	382	Saccharomyces cerevisiae	Mutation: D205N Gene Name(s): SIR3 CMT1 MAR2 STE8 YLR442C L9753.10
Metabolic Pathways Maps: Reactions: ESCHER BiGG
Protein Feature View - UniProtKB AC: P06701 UniProt Full Protein Feature View for P06701 Find similar proteins by: Sequence \| Structure Show Detailed Protein Feature View for P06701/4JJN

Macromolecule Entities
Molecule	Chains	Length	Organism	Details
DNA (146-MER)	I	147	synthetic
DNA (146-MER)	J	147	synthetic

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.09 Å
R-Value Free: 0.255
R-Value Work: 0.231
Space Group: P 6₁

Unit Cell:

Length (Å)	Angle (°)
a = 103.68	α = 90.00
b = 103.68	β = 90.00
c = 556.38	γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2013-03-08
Released Date: 2013-05-15
Deposition author(s): Wang, F., Li, G., Mohammed, A., Lu, C., Currie, M., Johnson, A., Moazed, D.

Revision History

2013-06-05
Type: Database references
2013-06-19
Type: Database references

Prepare Data

Validate Data

Deposit Data

Deposition Help & Resources