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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00742
  • pan locus tag?: SAUPAN002630000
  • symbol: SAOUHSC_00742
  • pan gene symbol?: nrdE
  • synonym:
  • product: ribonucleotide-diphosphate reductase subunit alpha

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_00742
  • symbol: SAOUHSC_00742
  • product: ribonucleotide-diphosphate reductase subunit alpha
  • replicon: chromosome
  • strand: +
  • coordinates: 727082..729247
  • length: 2166
  • essential: yes [1] DEG other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    TTGAGTTACATGGAAAAAACAAAGACGTTATTGAATTTAAGAACAAGGTGGGTAATTTTA
    ATGAAAACCATGGAAGAGAAAAAGTACAATCATATTGAATTAAATAATGAGGTCACTAAA
    CGAAGAGAAGATGGATTCTTTAGTTTAGAAAAAGACCAAGAAGCTTTAGTAGCTTATTTA
    GAAGAAGTAAAAGACAAAACAATCTTCTTCGACACTGAAATCGAGCGTTTACGTTATTTA
    GTAGACAACGATTTTTATTTCAATGTGTTTGATATTTATAGTGAAGCGGATCTAATTGAA
    ATCACTGATTATGCAAAATCAATCCCGTTTAATTTTGCAAGTTATATGTCAGCTAGTAAA
    TTTTTCAAAGATTACGCTTTGAAAACAAATGATAAAAGTCAATACTTAGAAGACTATAAT
    CAACACGTTGCCATTGTTGCTTTATACCTAGCAAATGGTAATAAAGCACAAGCTAAACAA
    TTTATTTCTGCTATGGTTGAACAAAGATATCAACCAGCGACACCAACATTTTTAAACGCA
    GGCCGTGCGCGTCGTGGTGAGCTAGTGTCATGTTTCTTATTAGAAGTGGATGACAGCTTA
    AATTCAATTAACTTTATTGATTCAACTGCAAAACAATTAAGTAAAATTGGGGGCGGCGTT
    GCAATTAACTTATCTAAATTGCGTGCACGTGGTGAAGCAATTAAAGGAATTAAAGGCGTA
    GCGAAAGGCGTTTTACCTATTGCTAAGTCACTTGAAGGTGGCTTTAGCTATGCAGATCAA
    CTTGGTCAACGCCCTGGTGCTGGTGCTGTGTACTTAAATATCTTCCATTATGATGTAGAA
    GAATTTTTAGATACTAAAAAAGTAAATGCGGATGAAGATTTACGTTTATCTACAATATCA
    ACTGGTTTAATTGTTCCATCTAAATTCTTCGATTTAGCTAAAGAAGGTAAGGACTTTTAT
    ATGTTTGCACCTCATACAGTTAAAGAAGAATATGGTGTGACATTAGACGATATCGATTTA
    GAAAAATATTATGATGACATGGTTGCAAACCCAAATGTTGAGAAAAAGAAAAAGAATGCG
    CGTGAAATGTTGAATTTAATTGCGCAAACACAATTACAATCAGGTTATCCATATTTAATG
    TTTAAAGATAATGCTAACAGAGTGCATCCGAATTCAAACATTGGACAAATTAAAATGAGT
    AACTTATGTACGGAAATTTTCCAACTACAAGAAACTTCAATTATTAATGACTATGGTATT
    GAAGACGAAATTAAACGTGATATTTCTTGTAACTTGGGCTCATTAAATATTGTTAATGTA
    ATGGAAAGCGGAAAATTCAGAGATTCAGTTCACTCTGGTATGGACGCATTAACTGTTGTG
    AGTGATGTAGCAAATATTCAAAATGCACCAGGAGTTAGAAAAGCTAACAGTGAATTACAT
    TCAGTTGGTCTTGGTGTGATGAATTTACACGGTTACCTAGCAAAAAATAAAATTGGTTAT
    GAGTCAGAAGAAGCAAAAGATTTTGCAAATATCTTCTTTATGATGATGAATTTCTACTCA
    ATCGAACGTTCAATGGAAATCGCTAAAGAGCGTGGTATCAAATATCAAGACTTTGAAAAG
    TCTGATTATGCTAATGGCAAATATTTCGAGTTCTATACAACTCAAGAATTTGAACCTCAA
    TTCGAAAAAGTACGTGAATTATTCGATGGTATGGCTATTCCTACTTCTGAGGATTGGAAG
    AAACTACAACAAGATGTTGAACAATATGGTTTATATCATGCATATAGATTAGCAATTGCT
    CCAACACAAAGTATTTCTTATGTTCAAAATGCAACAAGTTCTGTAATGCCAATCGTTGAC
    CAAATTGAACGTCGTACTTATGGTAATGCGGAAACATTTTACCCTATGCCATTCTTATCA
    CCACAAACAATGTGGTACTACAAATCAGCATTCAATACTGATCAGATGAAATTAATCGAT
    TTAATTGCGACAATTCAAACGCATATTGACCAAGGTATCTCAACGATCCTTTATGTTAAT
    TCTGAAATTTCTACACGTGAGTTAGCAAGATTATATGTATATGCGCACTATAAAGGATTA
    AAATCACTTTACTATACTAGAAATAAATTATTAAGTGTAGAAGAATGTACAAGTTGTTCT
    ATCTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2166

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_00742
  • symbol: SAOUHSC_00742
  • description: ribonucleotide-diphosphate reductase subunit alpha
  • length: 721
  • theoretical pI: 5.17577
  • theoretical MW: 82604.2
  • GRAVY: -0.365187

⊟Function[edit | edit source]

  • reaction:
    EC 1.17.4.1?  ExPASy
    Ribonucleoside-diphosphate reductase 2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin
  • TIGRFAM:
    ribonucleoside-diphosphate reductase, class 1b, alpha subunit (TIGR04170; EC 1.17.4.1; HMM-score: 1139.6)
    and 3 more
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism ribonucleoside-diphosphate reductase, alpha subunit (TIGR02506; EC 1.17.4.1; HMM-score: 544.1)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent (TIGR02504; EC 1.17.4.1; HMM-score: 229.1)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism ribonucleoside-diphosphate reductase, alpha chain (TIGR02510; EC 1.17.4.1; HMM-score: 131)
  • TheSEED  :
    • Ribonucleotide reductase of class Ib (aerobic), alpha subunit (EC 1.17.4.1)
    Nucleosides and Nucleotides Nucleosides and Nucleotides - no subcategory Ribonucleotide reduction  Ribonucleotide reductase of class Ib (aerobic), alpha subunit (EC 1.17.4.1)
    and 1 more
    Stress Response Oxidative stress Glutathione: Redox cycle  Ribonucleotide reductase of class Ib (aerobic), alpha subunit (EC 1.17.4.1)
  • PFAM:
    PFL-like (CL0339) Ribonuc_red_lgC; Ribonucleotide reductase, barrel domain (PF02867; HMM-score: 462.1)
    and 4 more
    no clan defined RNR_N; Ribonucleotide reductase N-terminal (PF08343; HMM-score: 71.6)
    Ribonuc_red_lgN; Ribonucleotide reductase, all-alpha domain (PF00317; HMM-score: 51.9)
    Caud_tail_N; Caudoviral major tail protein N-terminus (PF16838; HMM-score: 14.9)
    Alk_phosphatase (CL0088) DUF4976; Domain of unknown function (DUF4976) (PF16347; HMM-score: 10.6)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helices: 0
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: -1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.002801
    • TAT(Tat/SPI): 0.000125
    • LIPO(Sec/SPII): 0.000551
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSYMEKTKTLLNLRTRWVILMKTMEEKKYNHIELNNEVTKRREDGFFSLEKDQEALVAYLEEVKDKTIFFDTEIERLRYLVDNDFYFNVFDIYSEADLIEITDYAKSIPFNFASYMSASKFFKDYALKTNDKSQYLEDYNQHVAIVALYLANGNKAQAKQFISAMVEQRYQPATPTFLNAGRARRGELVSCFLLEVDDSLNSINFIDSTAKQLSKIGGGVAINLSKLRARGEAIKGIKGVAKGVLPIAKSLEGGFSYADQLGQRPGAGAVYLNIFHYDVEEFLDTKKVNADEDLRLSTISTGLIVPSKFFDLAKEGKDFYMFAPHTVKEEYGVTLDDIDLEKYYDDMVANPNVEKKKKNAREMLNLIAQTQLQSGYPYLMFKDNANRVHPNSNIGQIKMSNLCTEIFQLQETSIINDYGIEDEIKRDISCNLGSLNIVNVMESGKFRDSVHSGMDALTVVSDVANIQNAPGVRKANSELHSVGLGVMNLHGYLAKNKIGYESEEAKDFANIFFMMMNFYSIERSMEIAKERGIKYQDFEKSDYANGKYFEFYTTQEFEPQFEKVRELFDGMAIPTSEDWKKLQQDVEQYGLYHAYRLAIAPTQSISYVQNATSSVMPIVDQIERRTYGNAETFYPMPFLSPQTMWYYKSAFNTDQMKLIDLIATIQTHIDQGISTILYVNSEISTRELARLYVYAHYKGLKSLYYTRNKLLSVEECTSCSI

⊟Experimental data[edit | edit source]

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: NrdR (repression) regulon
    NrdR(TF)important in Deoxyribonucleotide biosynthesis; RegPrecise    transcription unit transferred from N315 data RegPrecise 

⊟Transcription pattern[edit | edit source]

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

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  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. ↑ 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)
  3. ↑ 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)
  4. ↑ 4.0 4.1 4.2 4.3 4.4 4.5 4.6 4.7 4.8 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)
  5. ↑ 5.0 5.1 5.2 5.3 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)

⊟Relevant publications[edit | edit source]

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