ISDA

Entry Detail

PDB ID:

4LD9

Keywords:

NUCLEAR PROTEIN/TRANSCRIPTION/DNA

Title:

Crystal structure of the N-terminally acetylated BAH domain of Sir3 bound to the nucleosome core particle

Biological Source:

Source Organism:

Xenopus laevis, Saccharomyces cerevisiae,

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2013-06-24

Release Date:

2013-08-14

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

3.31 Å

R-Value Free:

0.29

R-Value Work:

0.23

R-Value Observed:

0.24

Space Group:

P 61

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:Histone H3.2
Chain IDs:A, E
Chain Length:136
Number of Molecules:2
Biological Source:Xenopus laevis

UniProt ID:P84233 Pfam ID:PF00125

Protein Blast

Polymer Type:polypeptide(L)
Description:Histone H4
Chain IDs:B, F
Chain Length:103
Number of Molecules:2
Biological Source:Xenopus laevis

UniProt ID:P62799 Pfam ID:PF15511

Protein Blast

Polymer Type:polypeptide(L)
Description:Histone H2A
Chain IDs:C, G
Chain Length:130
Number of Molecules:2
Biological Source:Xenopus laevis

UniProt ID:P06897 Pfam ID:PF00125, PF16211

Protein Blast

Polymer Type:polypeptide(L)
Description:Histone H2B 1.1
Chain IDs:D, H
Chain Length:126
Number of Molecules:2
Biological Source:Xenopus laevis

UniProt ID:P02281 Pfam ID:PF00125

Polymer Type:polydeoxyribonucleotide
Description:Widom 601 sequence reverse
Chain IDs:I
Chain Length:167
Number of Molecules:1
Biological Source:

Polymer Type:polydeoxyribonucleotide
Description:Widom 601 sequence forward
Chain IDs:J
Chain Length:167
Number of Molecules:1
Biological Source:

Protein Blast

Polymer Type:polypeptide(L)
Description:Regulatory protein SIR3
Chain IDs:K, L
Chain Length:236
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae

UniProt ID:P06701 Pfam ID:PF01426

Ligand Molecules

Primary Citation

The N-terminal acetylation of Sir3 stabilizes its binding to the nucleosome core particle.

Arnaudo, N, Fernandez, I.S, McLaughlin, S.H, Peak-Chew, S.Y, Rhodes, D, Martino, F.Show

Nat.Struct.Mol.Biol. 20 1119 1121 (2013)

PMID: 23934150 DOI: 10.1038/nsmb.2641

Abstact

The N-terminal acetylation of Sir3 is essential for heterochromatin establishment and maintenance in yeast, but its mechanism of action is unknown. The crystal structure of the N-terminally acetylated BAH domain of Saccharomyces cerevisiae Sir3 bound to the nucleosome core particle reveals that the N-terminal acetylation stabilizes the interaction of Sir3 with the nucleosome. Additionally, we present a new method for the production of protein-nucleosome complexes for structural analysis.

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Disease

Primary Citation of related structures