nrdF

ribonucleoside-diphosphate reductase (beta subunit)

locus: BSU_17390

pI: 4.66

mw: 38.22 kDa

protein length: 329 aa

gene length: 990 bp

function: synthesis of deoxyribonucleoside triphosphates

product: ribonucleoside-diphosphate reductase (beta 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: 1,871,089 → 1,872,078

Phenotypes of a mutant

• essential [Pubmed|12682299]

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 small chain family (with [protein|08B733574DC7B8D044033EBB94124D470A0FBE19|YosP], according to UniProt)

Paralogous protein(s)

• [protein|08B733574DC7B8D044033EBB94124D470A0FBE19|YosP]

[SW|Cofactors]

• dimanganic-tyrosyl radical (Mn^III₂-Y•) cofactor [Pubmed|24401092]

Effectors of protein activity

• 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]

Structure

• [PDB|4DR0] [Pubmed|22443445]
• [PDB|6MW3] (inhibitory filament formed with [protein|3B68CE8E9A35997B45E437A316996D585E43B76B|NrdE]) [Pubmed|31201319]

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

References

Reviews

• 17229208

Original Publications

• 16885274,8969495,24401092,23402532,22443445,21561096,15949864,27920297,28624879,31201319