› 8p39

Electron Microscopy
2.58Å resolution

Cryo-EM structure of the anaerobic ribonucleotide reductase from Prevotella copri in its dimeric, dGTP/ATP-bound state

Released:
DOI: 10.2210/pdb8p39/pdb
PDB entry 8p39 coloured by chain, front view.
PDB entry 8p39 coloured by chain, side view.
PDB entry 8p39 coloured by chain, top view.
Source organism: Prevotella copri
Primary publication:
Nucleotide binding to the ATP-cone in anaerobic ribonucleotide reductases allosterically regulates activity by modulating substrate binding.
Bimai O, Banerjee I, Rozman Grinberg I, Huang P, Hultgren L, Ekström S, Lundin D, Sjöberg BM, Logan DT
Elife 12 (2024)
PMID: 38968292
Related structures: EMD-17385

Function and Biology Details

Reaction catalysed: 
2'-deoxyribonucleoside triphosphate + thioredoxin disulfide + H(2)O = ribonucleoside triphosphate + thioredoxin
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-239830 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
ATP-cone domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 743 amino acids
Theoretical weight: 84.64 KDa
Source organism: Prevotella copri
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A3E4SF67 (Residues: 1-739; Coverage: 100%)
Gene names: DW250_07000, DW262_07430, DW263_04390, DXC61_11830
Sequence domains:

Ligands and Environments

4 bound ligands:
Ligand DGT 2 x DGT
Ligand MG 2 x MG
Ligand ATP 1 x ATP
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.58Å
Relevant EMDB volumes: EMD-17385
Expression system: Escherichia coli

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