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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2635 [new locus tag: SACOL_RS13795 ]
  • pan locus tag?: SAUPAN006322000
  • symbol: nrdD
  • pan gene symbol?: nrdD
  • synonym:
  • product: anaerobic ribonucleoside triphosphate reductase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2635 [new locus tag: SACOL_RS13795 ]
  • symbol: nrdD
  • product: anaerobic ribonucleoside triphosphate reductase
  • replicon: chromosome
  • strand: -
  • coordinates: 2694081..2695931
  • length: 1851
  • essential: unknown 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
    ATGAATCAAATCGAAGAAGCATTAACGGGTTTGATTTCTAAAGATCCTGCTATTGTTAAC
    GAAAATGCTAACAAAGATAGTGATACATTTTCAACAATGAGAGATTTAACAGCAGGTATC
    GTTTCTAAATCTTACGCATTAAATCATTTATTACCAAAGCACGTTGCAGATGCACATCAA
    AGAGGGGACATACATTTTCACGACTTAGATTATCATCCATTCCAACCGTTAACTAACTGT
    TGTTTAATAGATGCTAAAAATATGCTACATAATGGATTTGAAATAGGCAACGCGAATGTA
    ACTTCACCAAAATCAATACAAACTGCATCAGCGCAGCTTGTACAAATTATAGCCAATGTT
    TCTAGCAGTCAATATGGTGGCTGTACGGTTGACCGCGTTGACGAATTACTTAGTACATAT
    GCACGACATAATGAAGAACAACATAGGAATATCGCAAAGCAATTTGTCAAAGAATCTGAA
    ATTGATCGTTATGTTGATCAACAAGTCACTAAAGACATCAATGATGCGATTGAAAGTTTA
    GAATATGAAATTAATACCTTATATACATCTAATGGACAGACACCTTTTGTAACATTAGGA
    TTCGGCTTAGGTACAGATCATTTAAGTCGCAAAATTCAACAAGCTATCTTAAATACTCGT
    ATCAAAGGCTTAGGAAAAGACCGCACGACAGCGATTTTCCCGAAACTTGTATTTTCAATT
    AAAAAAGGAACCAACTTTAGTCCGCAAGATCCGAACTATGACATTAAACAACTAGCATTA
    AAGTGTTCAACGAAACGTATGTATCCAGATATTTTAAATTATGACAAACTCGTAGAAATA
    TTAGGTGATTTCAAAGCGCCAATGGGTTGTCGTTCATTTTTACCAAGTTGGAAAGATGCG
    GAAGGTCATTTTGAAAATAATGGTCGTTGTAATCTTGGTGTTGTTACACTTAATTTACCT
    AGAATGGCATTAGAATCTGCCGGTAATATGACGAAATTCTGGGAAATCTTTTATGAACGT
    ATCGATGTGTTACATGATGCATTACTTTATCGTATAAATCGTTTGAAAGATGCTGTACCG
    AATAACGCACCGATTTTATATAAAAGTGGCGCATTTAACTATAAATTAAAAGAAACAGAT
    GATGTTGCTGAGTTATTTAAAAATAAACGTGCAACGATTTCAATGGGCTATATAGGGTTG
    TATGAAACAGCTACTGTTTTCTATGGTCCAGACTGGGAAACATCTCAAGAAGCAAAAGCA
    TTTACGCTTGAAATTCTTAAAGAAATGAAACGTTATCAAACGAAATGGACAGAATTATAT
    GACATTTGGTTCAGTATTTACAGTACGCCGAGTGAATCGCTAACGGATCGTTTTTGTCGT
    TTAGACCAAGAGAGATTTGGAGATATTAAAGACATTACAGATAAAGGATATTATCAAAAC
    TCTTTCCATTATGATGTACGTAAAGATGTTACACCTTTTGAAAAGTTAGATTTTGAAAAA
    GATTATCCTTATTATGCGAGTGGTGGTTTCATTCACTATTGTGAGTATCCGAAATTGCAA
    CACAATTTGAAAGCACTAGAAGCGGTATGGGACTACTCTTATGACAAAGTTGGTTACTTA
    GGTACAAATATTCCGATTGATCATTGTTATGAATGTGATTACGATGGAGATTTTGAAGCA
    ACTGAAAAAGGATTTAAATGCCCGAACTGTGGCAATGATAATCCTAAAACAGTTGATGTC
    GTTAAACGAACATGTGGTTACCTAGGCAATCCAGTTCAACGTCCAGTAATTAAAGGCCGT
    CATAAAGAAATTTGCGCACGAGTAAAACATATGAAAGCGCCTAAAGAATGA
    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
    1851

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2635 [new locus tag: SACOL_RS13795 ]
  • symbol: NrdD
  • description: anaerobic ribonucleoside triphosphate reductase
  • length: 616
  • theoretical pI: 6.50952
  • theoretical MW: 70479.2
  • GRAVY: -0.541396

⊟Function[edit | edit source]

  • reaction:
    EC 1.17.4.2?  ExPASy
    Ribonucleoside-triphosphate reductase (thioredoxin) 2'-deoxyribonucleoside triphosphate + thioredoxin disulfide + H2O = ribonucleoside triphosphate + thioredoxin
  • TIGRFAM:
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase (TIGR02487; EC 1.17.4.2; HMM-score: 576.5)
    and 3 more
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase (TIGR02827; EC 1.17.4.2; HMM-score: 64.4)
    Genetic information processing Transcription Transcription factors transcription factor E (TIGR00373; HMM-score: 13.5)
    Genetic information processing Protein fate Protein folding and stabilization chaperone protein DnaK (TIGR02350; HMM-score: 10.6)
  • TheSEED  :
    • Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2)
    Nucleosides and Nucleotides Nucleosides and Nucleotides - no subcategory Ribonucleotide reduction  Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2)
  • PFAM:
    PFL-like (CL0339) NRDD; Anaerobic ribonucleoside-triphosphate reductase (PF13597; HMM-score: 610.4)
    and 7 more
    Gly_radical; Glycine radical (PF01228; HMM-score: 99.4)
    Phosphatase (CL0031) NleF_casp_inhib; NleF caspase inhibitor (PF16809; HMM-score: 15.2)
    Zn_Beta_Ribbon (CL0167) Zn_ribbon_TiaS; TiaS C-terminal zinc ribbon domain (PF23783; HMM-score: 14.8)
    Zn_Ribbon_1; zinc-ribbon domain (PF13240; HMM-score: 12.3)
    Tbcl_zf (CL0839) zf-FPG_IleRS; Zinc finger found in FPG and IleRS (PF06827; HMM-score: 11.8)
    L9_N_sp (CL0885) Ribosomal_L9_N; Ribosomal protein L9, N-terminal domain (PF01281; HMM-score: 11.3)
    Zn_Beta_Ribbon (CL0167) Zn_ribbon_3; zinc-ribbon domain (PF13248; HMM-score: 7.1)

⊟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
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.6003
    • Cytoplasmic Membrane Score: 0.0009
    • Cell wall & surface Score: 0.0004
    • Extracellular Score: 0.3985
  • 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): 0.005243
    • TAT(Tat/SPI): 0.005933
    • LIPO(Sec/SPII): 0.000678
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MNQIEEALTGLISKDPAIVNENANKDSDTFSTMRDLTAGIVSKSYALNHLLPKHVADAHQRGDIHFHDLDYHPFQPLTNCCLIDAKNMLHNGFEIGNANVTSPKSIQTASAQLVQIIANVSSSQYGGCTVDRVDELLSTYARHNEEQHRNIAKQFVKESEIDRYVDQQVTKDINDAIESLEYEINTLYTSNGQTPFVTLGFGLGTDHLSRKIQQAILNTRIKGLGKDRTTAIFPKLVFSIKKGTNFSPQDPNYDIKQLALKCSTKRMYPDILNYDKLVEILGDFKAPMGCRSFLPSWKDAEGHFENNGRCNLGVVTLNLPRMALESAGNMTKFWEIFYERIDVLHDALLYRINRLKDAVPNNAPILYKSGAFNYKLKETDDVAELFKNKRATISMGYIGLYETATVFYGPDWETSQEAKAFTLEILKEMKRYQTKWTELYDIWFSIYSTPSESLTDRFCRLDQERFGDIKDITDKGYYQNSFHYDVRKDVTPFEKLDFEKDYPYYASGGFIHYCEYPKLQHNLKALEAVWDYSYDKVGYLGTNIPIDHCYECDYDGDFEATEKGFKCPNCGNDNPKTVDVVKRTCGYLGNPVQRPVIKGRHKEICARVKHMKAPKE

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for NCTC8325
  • protein localization: Cytoplasmic [1]
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟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 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. ↑ Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int J Med Microbiol: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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