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nrDB specifications

Information


Unique identifier OMICS_06357
Name nrDB
Restrictions to use None
Maintained No

Publication for nrDB

nrDB citations

 (78)
library_books

Novel ATP cone driven allosteric regulation of ribonucleotide reductase via the radical generating subunit

2018
eLife
PMCID: 5794259
PMID: 29388911
DOI: 10.7554/eLife.31529.023

[…] f effector, the KL values for binding of effectors to the s-site and the a-site, were calculated in SigmaPlot using the equation:V=Vmax×[dNTP]/(KL+[dNTP])and Ki for non-competitive dATP inhibition at NrdB was calculated in Sigmaplot using the equation:V=Vmax/(1+[dNTP]/Ki) […]

library_books

Manipulating the Bacterial Cell Cycle and Cell Size by Titrating the Expression of Ribonucleotide Reductase

2017
MBio
PMCID: 5686538
PMID: 29138305
DOI: 10.1128/mBio.01741-17

[…] s the reduction of ribonucleoside diphosphate to deoxyribonucleoside diphosphate, which is the rate-limiting step in dNTP production (). In Escherichia coli, the class Ia RNR (encoded by the nrdA and nrdB genes) is responsible for dNTP production under aerobic conditions (). Thus, we introduced a genetic circuit into a wild-type E. coli K-12 strain in order to titrate the expression of RNR (FL-2 s […]

library_books

The Sit and Wait Hypothesis in Bacterial Pathogens: A Theoretical Study of Durability and Virulence

2017
Front Microbiol
PMCID: 5701638
PMID: 29209284
DOI: 10.3389/fmicb.2017.02167

[…] O identifiers is presented below in Supplementary Table . In total, 1406 bacterial proteins were collected as seed proteins and used for constructing HMMs corresponding to ASR after using Perl script nrdb90.pl to remove the sequences with more than 90% similarity from the selected proteins (). After obtaining sequences for all seed proteins, remote BLAST was performed to collect homologous sequenc […]

library_books

Prohibition of antibiotic growth promoters has affected the genomic profiles of Lactobacillus salivarius inhabiting the swine intestine

2017
PLoS One
PMCID: 5653324
PMID: 29059217
DOI: 10.1371/journal.pone.0186671

[…] ing analyzed []. The evolutionary distances were computed using the Maximum Composite Likelihood method []. Nucleotide sequences of the seven L. salivarius housekeeping genes, pstB, rpsB, pheS, ftsQ, nrdB, rpoA and parB were used in clustering for MLSA []. […]

call_split

Genetic and genomic diversity of NheABC locus from Bacillus strains

2017
Arch Microbiol
PMCID: 5486940
PMID: 28283680
DOI: 10.1007/s00203-017-1350-9
call_split See protocol

[…] a Qiagen Company) using the neighbor joining (NJ) algorithm with Jukes Cantor as substitution rate model, and by building sequence types (ST) of the various strains using the non-redundant database (NRDB) for allele comparison (http://pubmlst.org/). To cluster the strains according to their ST, BURST analysis was performed which defines a group when at least 5/7 loci were identical (http://pubmls […]

library_books

Things Are Getting Hairy: Enterobacteria Bacteriophage vB_PcaM_CBB

2017
Front Microbiol
PMCID: 5259590
PMID: 28174560
DOI: 10.3389/fmicb.2017.00044

[…] ase (CBB_291) and gyrase subunit (CBB_324).Like the other Rak2-like phages, CBB has ORFs coding for a number of enzymes apparently involved in nucleotide metabolism including the aerobic class I NrdA-NrdB (CBB_303, 305) and anaerobic class III NrdD-NrdG (CBB_141, 145) ribonucleotide reductase (RNR) enzymes for the conversion of ribonucleotides to deoxyribonucleotides (Dwivedi et al., ). There is a […]

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nrDB institution(s)
Graduate Group in Biochemistry and Molecular Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA

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