nrdE [2019-06-17 11:16:34]

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

locus: BSU17380

pI: 5.93

mw: 80.50 kDa

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

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.5|Nucleotide metabolism] → [category|SW 2.5.2|Biosynthesis/ acquisition of nucleotides] → [category|SW 2.5.2.5|Biosynthesis/ acquisition of nucleotides/ other]
• [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]

Gene

Coordinates: 1,868,969 1,871,071

Phenotypes of a mutant

• essential [Pubmed|12682299]

The protein

Catalyzed reaction/ biological activity

• 2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin (according to Swiss-Prot)
• required for stationary-phase mutagenesis [Pubmed|27920297]

Protein family

• ribonucleoside diphosphate reductase large chain family (according to Swiss-Prot)

Paralogous protein(s)

• [protein|FD4CD7DB35AA20DBBEC0A4DA5D88282D89CCDA6D|NrdEB]

Kinetic information

• Steady-state kinetics [Pubmed|29712847]

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 NrdE [Pubmed|29712847,24401092]
• TTP stimulates GDP reduction [Pubmed|29712847]
• dGTP stimulates ADP reduction [Pubmed|29712847]

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]

Additional information

• subject to Clp-dependent proteolysis upon glucose starvation [PubMed|17981983]

Expression and Regulation

Operons

• genes: [gene|1EA0595C74359A36B9161CFD531CA894C5E66E25|nrdI]-[gene|3B68CE8E9A35997B45E437A316996D585E43B76B|nrdE]-[gene|CD2D14FE9C10544E7C350167EBDBD941B898051D|nrdF]-[gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]
  description: [Pubmed|16885274]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|16885274], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|ResD]: activation, [Pubmed|16885274], in [regulon|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|ResD regulon]
  • [protein|FD4E988BB73F6476CCEA4C521F343D6F8CBA457F|NrdR]: repression, (predicted) [Pubmed|15949864], in [regulon|FD4E988BB73F6476CCEA4C521F343D6F8CBA457F|NrdR regulon]
  • [protein|00BCAAE16576DC5426A652580C69A570FC7A1C2C|PerR]: transcription repression, [Pubmed|27920297], in [regulon|00BCAAE16576DC5426A652580C69A570FC7A1C2C|PerR regulon]

  regulation

  • expressed under anaerobic conditions ([protein|search|ResD]) [Pubmed|16885274]

  additional information

  • A [protein|search|ncRNA] is predicted between '[protein|search|ymzA]' and '[protein|search|nrdI]' [PubMed|20525796]

• genes: [gene|93FA602438546FD6201FAB5BD19DB5DEB5965E48|ymzA]-[gene|1EA0595C74359A36B9161CFD531CA894C5E66E25|nrdI]-[gene|3B68CE8E9A35997B45E437A316996D585E43B76B|nrdE]-[gene|CD2D14FE9C10544E7C350167EBDBD941B898051D|nrdF]-[gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]
  description: [Pubmed|22383849]

labs

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

References

Reviews

• 17229208

Original Publications

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