9CG9 image
Deposition Date 2024-06-28
Release Date 2025-07-02
Last Version Date 2025-07-02
Entry Detail
PDB ID:
9CG9
Keywords:
DNA BINDING PROTEIN/DNA
Title:
Cryo-EM structure of an HMGB1 box bound to nucleosome at SHL-2
Biological Source:
Source Organism:
Xenopus laevis (Taxon ID: 8355)
Homo sapiens (Taxon ID: 9606)
synthetic construct (Taxon ID: 32630)
Host Organism:
Escherichia coli BL21(DE3)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.94 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9CG9 validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H3.2
Mutagens:G102A, C110A
Chain IDs:A, E
Chain Length:135
Number of Molecules:2
Biological Source:Xenopus laevis
UniProt ID:P84233 Pfam ID:PF00125
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H4
Chain IDs:B, F
Chain Length:102
Number of Molecules:2
Biological Source:Xenopus laevis
UniProt ID:P62799 Pfam ID:PF15511
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H2A type 1
Mutagens:G99R, A123S
Chain IDs:C, G
Chain Length:129
Number of Molecules:2
Biological Source:Xenopus laevis
UniProt ID:P06897 Pfam ID:PF00125, PF16211
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone H2B
Mutagens:S32T
Chain IDs:D, H
Chain Length:122
Number of Molecules:2
Biological Source:Xenopus laevis
UniProt ID:P02281 Pfam ID:PF00125
Polymer Type:polydeoxyribonucleotide
Molecule:Widom 601 DNA reverse strand (147-mer)
Chain IDs:I
Chain Length:154
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polydeoxyribonucleotide
Molecule:Widom 601 DNA forward strand (147-mer)
Chain IDs:J
Chain Length:154
Number of Molecules:1
Biological Source:synthetic construct
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:High mobility group protein B1
Gene (Uniprot):HMGB1
Chain IDs:K
Chain Length:217
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P09429 Pfam ID:PF09011, PF00505
Ligand Molecules
NA
Primary Citation
Competition between HMGB1 and H1 on nucleosomes tunes dynamics within condensed chromatin
To Be Published ? ? ? (?)
Primary Citation of related structures
9CG9