ISDA: 9W6E

Deposition Date 2025-08-04

Release Date 2026-08-12

Last Version Date 2026-08-12

Entry Detail

PDB ID:

9W6E

Keywords:

GENE REGULATION/DNA

Title:

Cryo-EM structure of a stacked human nucleosome core particle dimer assembled with DNA truncated at SHL-4.5

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)
Escherichia coli (Taxon ID: 562)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.70 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H3.1
Gene (Uniprot):H3C1, H3C2, H3C3, H3C4, H3C6, H3C7, H3C8, H3C10, H3C11, H3C12
Chain IDs:A, E, I (auth: K), M (auth: O)
Chain Length:135
Number of Molecules:4
Biological Source:Homo sapiens

UniProt ID:P68431 Pfam ID:PF00125

Structures with similar UniProt ID

Structural Superimposition 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, J (auth: L), N (auth: P)
Chain Length:102
Number of Molecules:4
Biological Source:Homo sapiens

UniProt ID:P62805 Pfam ID:PF15511

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H2A type 1-D
Gene (Uniprot):H2AC7
Chain IDs:C, G, K (auth: M), O (auth: Q)
Chain Length:129
Number of Molecules:4
Biological Source:Homo sapiens

UniProt ID:P20671 Pfam ID:PF00125, PF16211

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H2B type 2-E
Gene (Uniprot):H2BC21
Chain IDs:D, H, L (auth: N), P (auth: R)
Chain Length:125
Number of Molecules:4
Biological Source:Homo sapiens

UniProt ID:Q16778 Pfam ID:PF00125

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (119-MER)
Chain IDs:Q (auth: I), S
Chain Length:119
Number of Molecules:2
Biological Source:Escherichia coli

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (119-MER)
Chain IDs:R (auth: J), T
Chain Length:119
Number of Molecules:2
Biological Source:Escherichia coli

Ligand Molecules

Primary Citation

Structural basis for nucleosome stacking diversity mediated by solvent-exposed histone interfaces

Mu, Z, Huang, J.Show

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Primary Citation of related structures

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