nrdE

168

ribonucleoside-diphosphate reductase (alpha subunit), control of DNA/cell mass ratio

locus: BSU_17380

Molecular weight: 80.50 kDa

pI: 5.93

Protein length: 700 aa

Gene length: 2103 bp

function: synthesis of deoxyribonucleoside triphosphates

product: ribonucleoside-diphosphate reductase (alpha subunit)

essential: yes

ec: 1.17.4.1

synonyms: nrdE

List of homologs in different organisms, belongs to COG0209 (Galperin et al., 2021)

Gene

Coordinates: 1,868,969  1,871,071

Phenotypes of a mutant

• essential [Pubmed|12682299]

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The protein

Catalyzed reaction/ biological activity

• [thioredoxin]-disulfide + 2'-deoxyribonucleoside 5'-diphosphate + H₂O --> [thioredoxin]-dithiol + ribonucleoside 5'-diphosphate (according to UniProt)
• required for stationary-phase mutagenesis [Pubmed|27920297]

Protein family

• ribonucleoside diphosphate reductase large chain family (with [protein|FD4CD7DB35AA20DBBEC0A4DA5D88282D89CCDA6D|nrdEB], according to UniProt)

Structure

• [PDB|6CGL] (pH 4, dAMP bound) [Pubmed|29712847]
• [PDB|6CGM] (pH 7, apo-protein) [Pubmed|29712847]
• [PDB|6CGN] (pH 7, dAMP bound) [Pubmed|29712847]
• [PDB|6MT9] (TTP in substrate specificity site, ADP in inhibitory site (M-site), and ATP in activity site (I-site)) [Pubmed|31201319]
• [PDB|6MV9] (TTP in substrate specificity site, ADP in inhibitory site (M-site)) [Pubmed|31201319]
• [PDB|6MVE] (TTP in S-site, ADP in M-site, ATP in I-site, and C-terminal cysteine residues captured in active site) [Pubmed|31201319]
• [PDB|6MW3] (cyro-EM structure of inhibitory filament formed with [protein|CD2D14FE9C10544E7C350167EBDBD941B898051D|nrdF] [Pubmed|31201319]
• [PDB|6MYX] (cryo-EM structure of inhibitory filament) [Pubmed|31201319]
• [AF|P50620]

Effectors of protein activity

• ATP stimulates CDP and UDP reduction [Pubmed|29712847,24401092]
• dATP at concentrations up to ~10 M stimulate CDP and UDP reduction, while higher concentrations inhibit this activity, inhibition by dATP is enhanced by binding of dAMP to the N-terminal domain of [protein|3B68CE8E9A35997B45E437A316996D585E43B76B|nrdE] [Pubmed|31201319,29712847,24401092]
• TTP stimulates GDP reduction [Pubmed|29712847]
• dGTP stimulates ADP reduction [Pubmed|29712847]

Kinetic information

• Steady-state kinetics [Pubmed|29712847]

Paralogous protein(s)

• [protein|FD4CD7DB35AA20DBBEC0A4DA5D88282D89CCDA6D|nrdEB]

labs

• [wiki|Elisabeth Härtig], Braunschweig, Germany [http://www.tu-braunschweig.de/ifm/abt/jahn/groups/bs Homepage]

References

Reviews

• 17229208,32569524

Original Publications

• 16885274,8969495,24401092,21561096,12818204,15949864,27920297,28624879,29712847,31201319,34031038,35652913,36815589