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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00743
  • pan locus tag?: SAUPAN002631000
  • symbol: nrdF
  • pan gene symbol?: nrdF
  • synonym:
  • product: ribonucleotide-diphosphate reductase subunit beta

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_00743
  • symbol: nrdF
  • product: ribonucleotide-diphosphate reductase subunit beta
  • replicon: chromosome
  • strand: +
  • coordinates: 729365..730336
  • length: 972
  • essential: yes [1] DEG other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    ATGATAGCTGTTAATTGGAACACACAAGAAGATATGACGAATATGTTTTGGAGACAAAAT
    ATATCTCAAATGTGGGTTGAAACAGAATTTAAAGTATCAAAAGACATTGCAAGTTGGAAG
    ACTTTATCTGAAGCTGAACAAGACACATTTAAAAAAGCATTAGCTGGTTTAACAGGCTTA
    GATACACATCAAGCAGATGATGGCATGCCTTTAGTTATGCTACATACGACTGACTTAAGG
    AAAAAAGCAGTTTATTCATTTATGGCGATGATGGAGCAAATACACGCGAAAAGCTATTCA
    CATATTTTCACAACACTATTACCATCTAGTGAAACAAACTACCTATTAGATGAATGGGTT
    TTAGAGGAACCCCATTTAAAATATAAATCTGATAAAATTGTTGCTAATTATCACAAACTT
    TGGGGTAAAGAAGCTTCGATATACGACCAATATATGGCCAGAGTTACGAGTGTATTTTTA
    GAAACATTCTTATTCTTCTCAGGTTTCTATTATCCACTATATCTTGCTGGTCAAGGGAAA
    ATGACGACATCAGGTGAAATCATTCGTAAAATTCTTTTAGATGAATCTATTCATGGTGTA
    TTTACCGGTTTAGATGCACAGCATTTACGAAATGAACTATCTGAAAGTGAGAAACAAAAA
    GCAGATCAAGAAATGTATAAATTGCTAAATGACTTGTATTTAAATGAAGAGTCATACACA
    AAAATGTTATACGATGATCTTGGAATCACTGAAGATGTGCTAAACTATGTTAAATATAAT
    GGAAACAAAGCACTTTCAAACTTAGGCTTTGAACCTTATTTTGAGGAACGTGAATTTAAC
    CCAATCATTGAGAATGCCTTAGATACAACAACTAAAAACCATGACTTCTTCTCAGTAAAA
    GGTGATGGTTATGTATTAGCATTAAACGTAGAAGCATTACAAGATGATGACTTTGTATTT
    GACAACAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    972

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_00743
  • symbol: NrdF
  • description: ribonucleotide-diphosphate reductase subunit beta
  • length: 323
  • theoretical pI: 4.52439
  • theoretical MW: 37513.1
  • GRAVY: -0.409907

Function[edit source | edit]

  • reaction:
    EC 1.17.4.1?  ExPASy
    Ribonucleoside-diphosphate reductase2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin
  • TIGRFAM:
    MetabolismPurines, pyrimidines, nucleosides, and nucleotides2'-Deoxyribonucleotide metabolismribonucleoside-diphosphate reductase, class 1b, beta subunit (TIGR04171; EC 1.17.4.1; HMM-score: 411.6)
  • TheSEED:  
    Nucleosides and NucleotidesNucleosides and Nucleotides - no subcategoryRibonucleotide reduction Ribonucleotide reductase of class Ib (aerobic), beta subunit (EC 1.17.4.1) 
  • PFAM:
    Ferritin (CL0044) Ribonuc_red_sm; Ribonucleotide reductase, small chain (PF00268; HMM-score: 220.2)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helix: 1
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular Possibility: 0.83
    • Signal Peptide Possibility: -1
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • Ymax: 0.108
    • Ymax_pos: 66
    • Cmax: 0.124
    • Cmax_pos: 66
    • Smax: 0.12
    • Smax_pos: 65
    • Smean: 0.086
    • D: 0.099
  • predicted transmembrane helices (TMHMM): 1

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MIAVNWNTQEDMTNMFWRQNISQMWVETEFKVSKDIASWKTLSEAEQDTFKKALAGLTGLDTHQADDGMPLVMLHTTDLRKKAVYSFMAMMEQIHAKSYSHIFTTLLPSSETNYLLDEWVLEEPHLKYKSDKIVANYHKLWGKEASIYDQYMARVTSVFLETFLFFSGFYYPLYLAGQGKMTTSGEIIRKILLDESIHGVFTGLDAQHLRNELSESEKQKADQEMYKLLNDLYLNEESYTKMLYDDLGITEDVLNYVKYNGNKALSNLGFEPYFEEREFNPIIENALDTTTKNHDFFSVKGDGYVLALNVEALQDDDFVFDNK

Experimental data[edit source | edit]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator: NrdR
    NrdR (TF) important in Deoxyribonucleotide biosynthesis  RegPrecise    transcription unit transferred from N315 data RegPrecise

Transcription pattern[edit source | edit]

Protein synthesis (provided by Aureolib)[edit source | edit]

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. Roy R Chaudhuri, Andrew G Allen, Paul J Owen, Gil Shalom, Karl Stone, Marcus Harrison, Timothy A Burgis, Michael Lockyer, Jorge Garcia-Lara, Simon J Foster, Stephen J Pleasance, Sarah E Peters, Duncan J Maskell, Ian G Charles
    Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH).
    BMC Genomics: 2009, 10;291
    [PubMed:19570206] [WorldCat.org] [DOI] (I e)
  2. Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  3. Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  4. Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet.: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

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