CATH Classification

Domain Context

CATH Clusters

Superfamily 3.20.70.20
Functional Family

Enzyme Information

1.17.4.1
Ribonucleoside-diphosphate reductase.
based on mapping to UniProt P50620
2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H(2)O = ribonucleoside diphosphate + thioredoxin.
-!- This enzyme is responsible for the de novo conversion of ribonucleoside diphosphates into deoxyribonucleoside diphosphates, which are essential for DNA synthesis and repair. -!- There are three types of this enzyme differing in their cofactors. -!- Class Ia enzymes contain a diiron(III)-tyrosyl radical, class Ib enzymes contain a dimanganese-tyrosyl radical, and class II enzymes contain adenosylcobalamin. -!- In all cases the cofactors are involved in generation of a transient thiyl (sulfanyl) radical on a cysteine residue, which attacks the substrate, forming a ribonucleotide 3'-radical, followed by water loss to form a ketyl (alpha-oxoalkyl) radical. -!- The ketyl radical is reduced to 3'-keto-deoxynucleotide concomitant with formation of a disulfide anion radical between two cysteine residues. -!- A proton-coupled electron-transfer from the disulfide radical to the substrate generates a 3'-deoxynucleotide radical, and the the final product is formed when the hydrogen atom that was initially removed from the 3'-position of the nucleotide by the thiyl radical is returned to the same position. -!- The disulfide bridge is reduced by the action of thioredoxin. -!- Cf. EC 1.1.98.6 and EC 1.17.4.2.

UniProtKB Entries (1)

P50620
RIR1_BACSU
Bacillus subtilis subsp. subtilis str. 168
Ribonucleoside-diphosphate reductase subunit alpha

PDB Structure

PDB 6CGL
External Links
Method X-RAY DIFFRACTION
Organism
Primary Citation
An endogenous dAMP ligand inBacillus subtilisclass Ib RNR promotes assembly of a noncanonical dimer for regulation by dATP.
Parker, M.J., Maggiolo, A.O., Thomas, W.C., Kim, A., Meisburger, S.P., Ando, N., Boal, A.K., Stubbe, J.
Proc. Natl. Acad. Sci. U.S.A.