ISDA

Deposition Date 2024-04-14

Release Date 2025-04-30

Last Version Date 2025-05-28

Entry Detail

PDB ID:

9BE6

Keywords:

DNA BINDING PROTEIN/DNA

Title:

Cryo-EM structure of Human Nucleosome collected by Leginon on Krios at 3.0 Angstrom resolution

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.00 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H3.2
Gene (Uniprot):H3C15, H3C14, H3C13
Chain IDs:A
Chain Length:97
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q71DI3 Pfam ID:PF00125

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H4
Chain IDs:B
Chain Length:83
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:A0A9J8D176 Pfam ID:PF15511

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H2A type 1
Gene (Uniprot):H2AC11, H2AC13, H2AC15, H2AC16, H2AC17
Chain IDs:C
Chain Length:103
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P0C0S8 Pfam ID:PF00125, PF16211

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H2B type 1-J
Gene (Uniprot):H2BC11
Chain IDs:D
Chain Length:95
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P06899 Pfam ID:PF00125

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H3.2
Gene (Uniprot):H3C15, H3C14, H3C13
Chain IDs:E
Chain Length:97
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q71DI3 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:F
Chain Length:78
Number of Molecules:1
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:G
Chain Length:105
Number of Molecules:1
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:H
Chain Length:93
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P06899 Pfam ID:PF00125

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (145-MER)
Chain IDs:I
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (145-MER)
Chain IDs:J
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens

Ligand Molecules

Primary Citation

Cryo-EM structure of Human Nucleosome collected by Leginon on Krios at 3.0 Angstrom resolution

Jia, L, Ruben, E.A, Olsen, S.K, Wasmuth, E.V.Show

To Be Published ? ? ? (?)

Primary Citation of related structures