nrdE
168
ribonucleoside-diphosphate reductase (alpha subunit), control of DNA/cell mass ratio
locus
BSU_17380
Molecular weight
80.50 kDa
pI
5.93
function
synthesis of deoxyribonucleoside triphosphates
product
ribonucleoside-diphosphate reductase (alpha subunit)
essential
yes
ec
1.17.4.1
synonyms
nrdE
Outlinks
Genomic Context
Categories containing this gene/protein
List of homologs in different organisms, belongs to COG0209 (Galperin et al., 2021)
This gene is a member of the following regulons
Gene
Coordinates
1,868,969 1,871,071
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 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]
Expression and Regulation
Operons
genes
[gene|1EA0595C74359A36B9161CFD531CA894C5E66E25|nrdI]-[gene|3B68CE8E9A35997B45E437A316996D585E43B76B|nrdE]-[gene|CD2D14FE9C10544E7C350167EBDBD941B898051D|nrdF]-[gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]
description
[Pubmed|16885274]
regulation
expressed under anaerobic conditions ([protein|search|ResD]) [Pubmed|16885274]
regulatory mechanism
[protein|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|resD]: activation, [Pubmed|16885274], in [regulon|protein:1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|resD regulon]
[protein|FD4E988BB73F6476CCEA4C521F343D6F8CBA457F|nrdR]: repression, (predicted) [Pubmed|15949864], in [regulon|protein:FD4E988BB73F6476CCEA4C521F343D6F8CBA457F|nrdR regulon]
[protein|00BCAAE16576DC5426A652580C69A570FC7A1C2C|perR]: transcription repression, [Pubmed|27920297], in [regulon|protein:00BCAAE16576DC5426A652580C69A570FC7A1C2C|perR regulon]
sigma factors
[protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [Pubmed|16885274], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]
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
[wiki|Elisabeth Härtig], Braunschweig, Germany [http://www.tu-braunschweig.de/ifm/abt/jahn/groups/bs Homepage]
References
Reviews
Original Publications
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Time of last update: 2024-12-30 05:58:58
Author of last update: Jstuelk