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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_000477
  • pan locus tag?: SAUPAN002284000
  • symbol: pdxT
  • pan gene symbol?: pdxT
  • synonym:
  • product: pyridoxal 5'-phosphate synthase glutaminase subunit PdxT

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_000477
  • symbol: pdxT
  • product: pyridoxal 5'-phosphate synthase glutaminase subunit PdxT
  • replicon: chromosome
  • strand: +
  • coordinates: 506515..507075
  • length: 561
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Gene ID:
  • RefSeq:
  • BioCyc:
  • MicrobesOnline:

⊟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
    ATGAAAATAGGTGTATTAGCATTACAAGGTGCAGTACGTGAACATATTAGACATATTGAA
    TTAAGTGGTCATGAAGGTATTGCAGTTAAAAAAGTTGAACAATTAGAAGAAATCGAGGGC
    TTAATATTACCTGGTGGCGAGTCTACAACGTTACGTCGATTAATGAATTTATATGGATTT
    AAAGAGGCTTTACAAAATTCAACTTTACCTATGTTTGGTACATGCGCAGGATTAATAGTT
    CTAGCGCAAGATATAGTTGGTGAAGAAGGATACCTTAACAAGTTGAATATTACTGTACAA
    CGAAACTCATTCGGTAGACAAGTTGACAGCTTTGAAACAGAATTAGATATTAAAGGTATC
    GCTACAGATATTGAAGGTGTCTTTATAAGAGCGCCACATATTGAAAAAGTAGGCCAAGGC
    GTAGATATCCTATGTAAGGTTAATGAGAAAATTGTAGCCGTCCAGCAAGGTAAATATTTA
    GGCGTATCATTCCATCCTGAATTAACAGATGACTATAGAGTAACTGATTACTTTATTAAT
    CATATTGTAAAAAAAGCATAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    561

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_000477
  • symbol: PdxT
  • description: pyridoxal 5'-phosphate synthase glutaminase subunit PdxT
  • length: 186
  • theoretical pI: 5.94492
  • theoretical MW: 20629.7
  • GRAVY: -0.0225806

⊟Function[edit | edit source]

  • reaction:
    EC 3.5.1.2?  ExPASy
    Glutaminase L-glutamine + H2O = L-glutamate + NH3
    EC 4.3.3.6?  ExPASy
    Pyridoxal 5'-phosphate synthase (glutamine hydrolyzing) D-ribose 5-phosphate + D-glyceraldehyde 3-phosphate + L-glutamine = pyridoxal 5'-phosphate + L-glutamate + 3 H2O + phosphate
  • TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Pyridoxine pyridoxal 5'-phosphate synthase, glutaminase subunit Pdx2 (TIGR03800; EC 2.6.-.-; HMM-score: 269.3)
    and 2 more
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Purine ribonucleotide biosynthesis GMP synthase (glutamine-hydrolyzing), N-terminal domain (TIGR00888; EC 6.3.5.2; HMM-score: 27.9)
    Metabolism Amino acid biosynthesis Histidine family imidazole glycerol phosphate synthase, glutamine amidotransferase subunit (TIGR01855; EC 2.4.2.-; HMM-score: 25.3)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    Glutaminase_I (CL0014) SNO; SNO glutamine amidotransferase family (PF01174; HMM-score: 233.1)
    and 4 more
    GATase; Glutamine amidotransferase class-I (PF00117; HMM-score: 26.7)
    GATase_3; CobB/CobQ-like glutamine amidotransferase domain (PF07685; HMM-score: 26.2)
    Peptidase_S51; Peptidase family S51 (PF03575; HMM-score: 16)
    DJ-1_PfpI; DJ-1/PfpI family (PF01965; HMM-score: 12.4)

⊟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: 0.9945
    • Cytoplasmic Membrane Score: 0.0002
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0052
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.006142
    • TAT(Tat/SPI): 0.000148
    • LIPO(Sec/SPII): 0.000538
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MKIGVLALQGAVREHIRHIELSGHEGIAVKKVEQLEEIEGLILPGGESTTLRRLMNLYGFKEALQNSTLPMFGTCAGLIVLAQDIVGEEGYLNKLNITVQRNSFGRQVDSFETELDIKGIATDIEGVFIRAPHIEKVGQGVDILCKVNEKIVAVQQGKYLGVSFHPELTDDYRVTDYFINHIVKKA

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: PdxR* (activation) regulon
    PdxR*(TF)important in Pyridoxine biosynthesis;  regulation predicted or transferred from N315 and NCTC 8325  [2]

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Blanca Taboada, Karel Estrada, Ricardo Ciria, Enrique Merino
    Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes.
    Bioinformatics: 2018, 34(23);4118-4120
    [PubMed:29931111] [WorldCat.org] [DOI] (I p)
  2. ↑ Hannes Wolfgramm, Larissa Milena Busch, Jöran Tebben, Henry Mehlan, Lisa Hagenau, Thomas Sura, Tilly Hoffmüller, Elisa Bludau, Manuela Gesell Salazar, Alexander Reder, Stephan Michalik, Leif Steil, Kristin Surmann, Ulrike Mäder, Silva Holtfreter, Uwe Völker
    Integrated genomic and proteomic analysis of the mouse-adapted Staphylococcus aureus strain JSNZ.
    Curr Res Microb Sci: 2025, 9;100489
    [PubMed:41146725] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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