› 9ezz

X-ray diffraction
1.95Å resolution

Bacterial histone protein HBb from Bdellovibrio bacteriovorus bound to DNA

Released:
DOI: 10.2210/pdb9ezz/pdb
PDB entry 9ezz coloured by chain, front view.
PDB entry 9ezz coloured by chain, side view.
PDB entry 9ezz coloured by chain, top view.
Source organisms:
Primary publication:
Bacterial histone HBb from Bdellovibrio bacteriovorus compacts DNA by bending.
Hu Y, Schwab S, Deiss S, Escudeiro P, van Heesch T, Joiner JD, Vreede J, Hartmann MD, Lupas AN, Alvarez BH, Alva V, Dame RT
Nucleic Acids Res (2024)
PMID: 38864377

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-275898 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Transcription factor CBF/NF-Y/archaeal histone domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 66 amino acids
Theoretical weight: 7.19 KDa
Source organism: Bdellovibrio bacteriovorus HD100
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6MRM1 (Residues: 1-64; Coverage: 100%)
Gene name: Bd0055
Sequence domains: Histone-like transcription factor (CBF/NF-Y) and archaeal histone
DNA (5'-D(P*GP*GP*GP*CP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 21 nucleotides
Theoretical weight: 6.49 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*AP*GP*CP*CP*C)-3') Chain: D
Molecule details ›
Chain: D
Length: 20 nucleotides
Theoretical weight: 6.1 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P212121
Unit cell:
a: 32.316Å b: 34.223Å c: 151.827Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.223 0.221 0.268
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Bacterial chromatin proteins, transcription, and DNA topology: Inseparable partners in the control of gene expression.
Hustmyer et al. (2024)
1 more

1 mention without citation

Bacterial histone HBb from Bdellovibrio bacteriovorus compacts DNA by bending.
Hu et al. (2024)