9K3Z image
Entry Detail
PDB ID:
9K3Z
EMDB ID:
EMD-62034
Keywords:
NUCLEAR PROTEIN/DNA
Title:
Cryo-EM structure of Arabidopsis thaliana H2A.Z-nucleosome with Arabidopsis native 147bp DNA 15.2.2 (C2 symmetry)
Biological Source:
Source Organism:
Arabidopsis thaliana
Host Organism:
Escherichia coli
PDB Version:
Deposition Date:
2024-10-21
Release Date:
2025-05-14
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.75 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9K3Z validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:Histone H3.1
Chain IDs:A, E
Chain Length:136
Number of Molecules:2
Biological Source:Arabidopsis thaliana
UniProt ID:P59226 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:Arabidopsis thaliana
UniProt ID:P59259 Pfam ID:PF15511
Protein Blast
Polymer Type:polypeptide(L)
Description:Probable histone H2A variant 3
Chain IDs:C, G
Chain Length:134
Number of Molecules:2
Biological Source:Arabidopsis thaliana
UniProt ID:Q9C944 Pfam ID:PF00125, PF16211
Protein Blast
Polymer Type:polypeptide(L)
Description:Histone H2B.1
Chain IDs:D, H
Chain Length:148
Number of Molecules:2
Biological Source:Arabidopsis thaliana
UniProt ID:Q9LQQ4 Pfam ID:PF00125
Polymer Type:polydeoxyribonucleotide
Description:15.2.2 DNA (147-MER)
Chain IDs:I
Chain Length:147
Number of Molecules:1
Biological Source:Arabidopsis thaliana
Polymer Type:polydeoxyribonucleotide
Description:15.2.2 DNA (147-MER)
Chain IDs:J
Chain Length:147
Number of Molecules:1
Biological Source:Arabidopsis thaliana
Ligand Molecules
NA
Primary Citation
Structural and functional interrelationships of histone H2A with its variants H2A.Z and H2A.W in Arabidopsis
Structure ? ? ? (2025)
DOI: 10.1016/j.str.2025.04.015
Primary Citation of related structures
9K3Z