3WTP image
Deposition Date 2014-04-14
Release Date 2014-12-03
Last Version Date 2023-11-08
Entry Detail
PDB ID:
3WTP
Keywords:
DNA BINDING PROTEIN/DNA
Title:
Crystal Structure of the heterotypic nucleosome containing human CENP-A and H3.3
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.67 Å
R-Value Free:
0.26
R-Value Work:
0.22
R-Value Observed:
0.23
Space Group:
P 21 21 21
3WTP validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H3-like centromeric protein A
Gene (Uniprot):CENPA
Chain IDs:A
Chain Length:143
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P49450 Pfam ID:PF00125
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H4
Gene (Uniprot):H4C1, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16
Chain IDs:B, F
Chain Length:106
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62805 Pfam ID:PF15511
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H2A type 1-B/E
Gene (Uniprot):H2AC4, H2AC8
Chain IDs:C, G
Chain Length:133
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P04908 Pfam ID:PF00125, PF16211
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H2B type 1-J
Gene (Uniprot):H2BC11
Chain IDs:D, H
Chain Length:129
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P06899 Pfam ID:PF00125
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H3.3
Gene (Uniprot):H3-3A, H3-3B
Chain IDs:E
Chain Length:140
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P84243 Pfam ID:PF00125
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (146-MER)
Chain IDs:I, J
Chain Length:146
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
NA
Primary Citation
Crystal structure and stable property of the cancer-associated heterotypic nucleosome containing CENP-A and H3.3
Sci Rep 4 7115 7115 (2014)
PMID: 25408271 DOI: 10.1038/srep07115

Abstact

The centromere-specific histone H3 variant, CENP-A, is overexpressed in particular aggressive cancer cells, where it can be mislocalized ectopically in the form of heterotypic nucleosomes containing H3.3. In the present study, we report the crystal structure of the heterotypic CENP-A/H3.3 particle and reveal its "hybrid structure", in which the physical characteristics of CENP-A and H3.3 are conserved independently within the same particle. The CENP-A/H3.3 nucleosome forms an unexpectedly stable structure as compared to the CENP-A nucleosome, and allows the binding of the essential centromeric protein, CENP-C, which is ectopically mislocalized in the chromosomes of CENP-A overexpressing cells.

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Primary Citation of related structures
3WTP