› 8w7t

X-ray diffraction
2.5Å resolution

Fe-O nanocluster of form-VII in the 4-fold channel of Ureaplasma diversum ferritin

Released:
DOI: 10.2210/pdb8w7t/pdb
PDB entry 8w7t coloured by chain, front view.
PDB entry 8w7t coloured by chain, side view.
PDB entry 8w7t coloured by chain, top view.
Source organism: Ureaplasma diversum
Primary publication:
Growth Process of Fe-O Nanoclusters with Different Sizes Biosynthesized by Protein Nanocages.
Wang W, Xi H, Fu D, Ma D, Gong W, Zhao Y, Li X, Wu L, Guo Y, Zhao G, Wang H
J Am Chem Soc 146 11657-11668 (2024)
PMID: 38641862

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo 24-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-268530 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ferritin-like diiron domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 181 amino acids
Theoretical weight: 21.25 KDa
Source organism: Ureaplasma diversum
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A084EX36 (Residues: 1-172; Coverage: 100%)
Gene name: UDIV_5880
Sequence domains: Ferritin-like domain

Ligands and Environments

3 bound ligands:
Ligand FE 15 x FE
Ligand MG 1 x MG
Ligand CL 4 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL18U1
Spacegroup: F432
Unit cell:
a: 179.789Å b: 179.789Å c: 179.789Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.162 0.156 0.22
Expression system: Escherichia coli

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