PDBsum entry 9byc

Oxidoreductase

PDB id: 9byc

Contents

Protein chains

683 a.a.

289 a.a.

Ligands

TTP ×2

ATP ×2

DGI ×2

Metals

_MN ×4

_MG ×2

PDB id:

9byc

Name:

Oxidoreductase

Title:

Class 12 model for product condition of bacillus subtilis ribonucleotide reductase complex

Structure:

Ribonucleoside-diphosphate reductase subunit alpha. Chain: a, b. Synonym: ribonucleotide reductase large subunit. Engineered: yes. Ribonucleoside-diphosphate reductase subunit beta. Chain: c, d. Synonym: ribonucleotide reductase small subunit. Engineered: yes

Source:

Bacillus subtilis. Organism_taxid: 1423. Gene: nrde, nrda, bsu17380. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: nrdf, bsu17390. Expression_system_taxid: 562

Authors:

D.Xu,W.C.Thomas,A.A.Burnim,N.Ando

Key ref:

D.Xu et al. (2025). Conformational landscapes of a class i ribonucleotide reductase complex during turnover reveal intrinsic dy and asymmetry. Nat commun, 16, 2458. PubMed id: 40075098

Date:

23-May-24 Release date: 19-Mar-25

Protein chains

P50620  (RIR1_BACSU) -  Ribonucleoside-diphosphate reductase subunit alpha from Bacillus subtilis (strain 168)

Seq: 700 a.a.

Struc: 683 a.a.

Protein chains

P50621  (RIR2_BACSU) -  Ribonucleoside-diphosphate reductase subunit beta from Bacillus subtilis (strain 168)

Seq: 329 a.a.

Struc: 289 a.a.

Enzyme reactions

• Enzyme class: Chains A, B, C, D: E.C.1.17.4.1 - ribonucleoside-diphosphate reductase.
• Reaction: a 2'-deoxyribonucleoside 5'-diphosphate + [thioredoxin]-disulfide + H2O = a ribonucleoside 5'-diphosphate + [thioredoxin]-dithiol
• Cofactor: Fe(3+) or adenosylcob(III)alamin or Mn(2+)

Molecule diagrams generated from .mol files obtained from the KEGG ftp site