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NCBI: 06-JUL-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_0700 [new locus tag: NWMN_RS03960 ]
  • pan locus tag?: SAUPAN002630000
  • symbol: nrdE
  • pan gene symbol?: nrdE
  • synonym:
  • product: ribonucleotide-diphosphate reductase subunit alpha

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: NWMN_0700 [new locus tag: NWMN_RS03960 ]
  • symbol: nrdE
  • product: ribonucleotide-diphosphate reductase subunit alpha
  • replicon: chromosome
  • strand: +
  • coordinates: 784573..786729
  • length: 2157
  • essential: unknown 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
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    ATGGAAAAAACAAAGACGTTATTGAATTTAAGAACAAGGTGGGTAATTTTAATGAAAACC
    ATGGAAGAGAAAAAGTACAATCATATTGAATTAAATAATGAGGTCACTAAACGAAGAGAA
    GATGGATTCTTTAGTTTAGAAAAAGACCAAGAAGCTTTAGTAGCTTATTTAGAAGAAGTA
    AAAGACAAAACAATCTTCTTCGACACTGAAATCGAGCGTTTACGTTATTTAGTAGACAAC
    GATTTTTATTTCAATGTGTTTGATATTTATAGTGAAGCGGATCTAATTGAAATCACTGAT
    TATGCAAAATCAATCCCGTTTAATTTTGCAAGTTATATGTCAGCTAGTAAATTTTTCAAA
    GATTACGCTTTGAAAACAAATGATAAAAGTCAATACTTAGAAGACTATAATCAACACGTT
    GCCATTGTTGCTTTATACCTAGCAAATGGTAATAAAGCACAAGCTAAACAATTTATTTCT
    GCTATGGTTGAACAAAGATATCAACCAGCGACACCAACATTTTTAAACGCAGGCCGTGCG
    CGTCGTGGTGAGCTAGTGTCATGTTTCTTATTAGAAGTGGATGACAGCTTAAATTCAATT
    AACTTTATTGATTCAACTGCAAAACAATTAAGTAAAATTGGGGGCGGCGTTGCAATTAAC
    TTATCTAAATTGCGTGCACGTGGTGAAGCAATTAAAGGAATTAAAGGCGTAGCGAAAGGC
    GTTTTACCTATTGCTAAGTCACTTGAAGGTGGCTTTAGCTATGCAGATCAACTTGGTCAA
    CGCCCTGGTGCTGGTGCTGTGTACTTAAATATCTTCCATTATGATGTAGAAGAATTTTTA
    GATACTAAAAAAGTAAATGCGGATGAAGATTTACGTTTATCTACAATATCAACTGGTTTA
    ATTGTTCCATCTAAATTCTTCGATTTAGCTAAAGAAGGTAAGGACTTTTATATGTTTGCA
    CCTCATACAGTTAAAGAAGAATATGGTGTGACATTAGACGATATCGATTTAGAAAAATAT
    TATGATGACATGGTTGCAAACCCAAATGTTGAGAAAAAGAAAAAGAATGCGCGTGAAATG
    TTGAATTTAATTGCGCAAACACAATTACAATCAGGTTATCCATATTTAATGTTTAAAGAT
    AATGCTAACAGAGTGCATCCGAATTCAAACATTGGACAAATTAAAATGAGTAACTTATGT
    ACGGAAATTTTCCAACTACAAGAAACTTCAATTATTAATGACTATGGTATTGAAGACGAA
    ATTAAACGTGATATTTCTTGTAACTTGGGCTCATTAAATATTGTTAATGTAATGGAAAGC
    GGAAAATTCAGAGATTCAGTTCACTCTGGTATGGACGCATTAACTGTTGTGAGTGATGTA
    GCAAATATTCAAAATGCACCAGGAGTTAGAAAAGCTAACAGTGAATTACATTCAGTTGGT
    CTTGGTGTGATGAATTTACACGGTTACCTAGCAAAAAATAAAATTGGTTATGAGTCAGAA
    GAAGCAAAAGATTTTGCAAATATCTTCTTTATGATGATGAATTTCTACTCAATCGAACGT
    TCAATGGAAATCGCTAAAGAGCGTGGTATCAAATATCAAGACTTTGAAAAGTCTGATTAT
    GCTAATGGCAAATATTTCGAGTTCTATACAACTCAAGAATTTGAACCTCAATTCGAAAAA
    GTACGTGAATTATTCGATGGTATGGCTATTCCTACTTCTGAGGATTGGAAGAAACTACAA
    CAAGATGTTGAACAATATGGTTTATATCATGCATATAGATTAGCAATTGCTCCAACACAA
    AGTATTTCTTATGTTCAAAATGCAACAAGTTCTGTAATGCCAATCGTTGACCAAATTGAA
    CGTCGTACTTATGGTAATGCGGAAACATTTTACCCTATGCCATTCTTATCACCACAAACA
    ATGTGGTACTACAAATCAGCATTCAATACTGATCAGATGAAATTAATCGATTTAATTGCG
    ACAATTCAAACGCATATTGACCAAGGTATCTCAACGATCCTTTATGTTAATTCTGAAATT
    TCTACACGTGAGTTAGCAAGATTATATGTATATGCGCACTATAAAGGATTAAAATCACTT
    TACTATACTAGAAATAAATTATTAAGTGTAGAAGAATGTACAAGTTGTTCTATCTAA
    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
    2157

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: NWMN_0700 [new locus tag: NWMN_RS03960 ]
  • symbol: NrdE
  • description: ribonucleotide-diphosphate reductase subunit alpha
  • length: 718
  • theoretical pI: 5.17577
  • theoretical MW: 82222.8
  • GRAVY: -0.366435

Function[edit source | edit]

  • reaction:
    EC 1.17.4.1?  ExPASy
    Ribonucleoside-diphosphate reductase2'-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)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotides2'-Deoxyribonucleotide metabolismribonucleoside-diphosphate reductase, alpha subunit (TIGR02506; EC 1.17.4.1; HMM-score: 544.1)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotides2'-Deoxyribonucleotide metabolismribonucleoside-diphosphate reductase, adenosylcobalamin-dependent (TIGR02504; EC 1.17.4.1; HMM-score: 229.2)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotides2'-Deoxyribonucleotide metabolismribonucleoside-diphosphate reductase, alpha chain (TIGR02510; EC 1.17.4.1; HMM-score: 131.1)
  • TheSEED:  
    Nucleosides and NucleotidesNucleosides and Nucleotides - no subcategoryRibonucleotide reduction Ribonucleotide reductase of class Ib (aerobic), alpha subunit (EC 1.17.4.1) 
    Stress ResponseOxidative stressGlutathione: 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)
    no clan definedRNR_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: 10.7)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:
    NWMN_0509(fus)elongation factor G  [1] (data from MRSA252)
    NWMN_0162(pflB)formate acetyltransferase  [1] (data from MRSA252)
    NWMN_1151(rplS)50S ribosomal protein L19  [1] (data from MRSA252)
    NWMN_2150(rplW)50S ribosomal protein L23  [1] (data from MRSA252)
    NWMN_2135(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    NWMN_2143(rpsQ)30S ribosomal protein S17  [1] (data from MRSA252)
    NWMN_0510(tufA)elongation factor Tu  [1] (data from MRSA252)
    NWMN_0811hypothetical protein  [1] (data from MRSA252)
    NWMN_1600universal stress protein family protein  [1] (data from MRSA252)

Localization[edit source | edit]

  • 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
    • Ymax: 0.161
    • Ymax_pos: 11
    • Cmax: 0.117
    • Cmax_pos: 25
    • Smax: 0.379
    • Smax_pos: 1
    • Smean: 0.228
    • D: 0.188
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MEKTKTLLNLRTRWVILMKTMEEKKYNHIELNNEVTKRREDGFFSLEKDQEALVAYLEEVKDKTIFFDTEIERLRYLVDNDFYFNVFDIYSEADLIEITDYAKSIPFNFASYMSASKFFKDYALKTNDKSQYLEDYNQHVAIVALYLANGNKAQAKQFISAMVEQRYQPATPTFLNAGRARRGELVSCFLLEVDDSLNSINFIDSTAKQLSKIGGGVAINLSKLRARGEAIKGIKGVAKGVLPIAKSLEGGFSYADQLGQRPGAGAVYLNIFHYDVEEFLDTKKVNADEDLRLSTISTGLIVPSKFFDLAKEGKDFYMFAPHTVKEEYGVTLDDIDLEKYYDDMVANPNVEKKKKNAREMLNLIAQTQLQSGYPYLMFKDNANRVHPNSNIGQIKMSNLCTEIFQLQETSIINDYGIEDEIKRDISCNLGSLNIVNVMESGKFRDSVHSGMDALTVVSDVANIQNAPGVRKANSELHSVGLGVMNLHGYLAKNKIGYESEEAKDFANIFFMMMNFYSIERSMEIAKERGIKYQDFEKSDYANGKYFEFYTTQEFEPQFEKVRELFDGMAIPTSEDWKKLQQDVEQYGLYHAYRLAIAPTQSISYVQNATSSVMPIVDQIERRTYGNAETFYPMPFLSPQTMWYYKSAFNTDQMKLIDLIATIQTHIDQGISTILYVNSEISTRELARLYVYAHYKGLKSLYYTRNKLLSVEECTSCSI

Experimental data[edit source | edit]

  • experimentally validated: no data available

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. 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 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)

Relevant publications[edit source | edit]