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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_001422
  • pan locus tag?: SAUPAN003892000
  • symbol: tdcB
  • pan gene symbol?: ilvA1
  • synonym:
  • product: bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_001422
  • symbol: tdcB
  • product: bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB
  • replicon: chromosome
  • strand: -
  • coordinates: 1466044..1467084
  • length: 1041
  • 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
    601
    661
    721
    781
    841
    901
    961
    1021
    ATGACAACCAACACAGTTACATTACAAACAGCACATATTGTAAGTTTAGGAGATATCGAA
    GAAGCTAAAGCAAGCATTAAACCATTTATTCGTCGAACACCTCTAATTAAATCAATGTAT
    TTAAGCCAAAGTATAACTAAAGGGAATGTATTTCTAAAATTAGAAAATATGCAATTCACA
    GGATCTTTTAAATTTAGAGGCGCTAGCAATAAAATTAATCATTTGTCAGATGAACAAAAA
    GCTAAAGGTATTATTGGCGCATCAGCCGGAAATCATGCACAAGGTGTAGCTTTGACAGCA
    AAACTATTAGGTATTGATGCAACGATTGTGATGCCAGAAACAGCACCAATTGCTAAACAG
    AATGCTACCAAAGGATATGGTGCAAAAGTCATTTTAAAAGGTAAAAACTTTAACGAAACT
    AGACTTTATATGGAAGAATTAGCGAAAGAAAATGGCATGACAATCGTTCATCCATATGAC
    GATAAGTTTGTCATGGCTGGTCAAGGAACAATTGGTTTAGAAATTTTAGATGATATTTGG
    AATGTGAATACAGTCATCGTACCAGTTGGCGGTGGAGGATTAATTGCAGGTATTGCCACC
    GCATTAAAATCATTTAACCCTTCAATTCATATTATCGGTGTTCAATCTGAGAATGTTCAT
    GGTATGACTGAGTCTTTCTATAAGAGAGATTTAACTGAACATCGAGTGGATAGCACGATA
    GCAGATGGTTGTGATGTAAAAGTTCCTGGTGAACAAACATATGAAGTAGTTAAACATTTA
    GTAGATGAATTTATTCTTGTTACTGAAGAAGAAATTGAACATGCTATGAAAGATTTAATG
    CAGCGTGCCAAAATTATTACTGAAGGTGCAGGCGCATTACCAACAGCTGCAATTTTAAGT
    GGGAAAATTGATAAAAAATGGCTAGAGGGTAAAAATGTCGTTGCATTAGTTTCAGGAGGA
    AACGTTGACTTAACTAGAGTTTCTGGTGTCATTGAACATGGCTTAAATATCGCGGATACA
    AGTAAGGGTGTGGTAGGTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1041

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_001422
  • symbol: TdcB
  • description: bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB
  • length: 346
  • theoretical pI: 6.86975
  • theoretical MW: 37177.5
  • GRAVY: -0.0251445

⊟Function[edit | edit source]

  • TIGRFAM:
    Metabolism Amino acid biosynthesis Pyruvate family threonine ammonia-lyase (TIGR01127; EC 4.3.1.19; HMM-score: 397.8)
    and 16 more
    Metabolism Amino acid biosynthesis Pyruvate family threonine ammonia-lyase, biosynthetic (TIGR01124; EC 4.3.1.19; HMM-score: 299.3)
    Metabolism Amino acid biosynthesis Pyruvate family threonine dehydratase (TIGR02079; EC 4.3.1.19; HMM-score: 264.8)
    ectoine utilization protein EutB (TIGR02991; HMM-score: 263)
    Metabolism Amino acid biosynthesis Serine family cysteine synthase (TIGR01136; EC 2.5.1.47; HMM-score: 92.4)
    Metabolism Amino acid biosynthesis Serine family cysteine synthase A (TIGR01139; EC 2.5.1.47; HMM-score: 81.5)
    Metabolism Amino acid biosynthesis Aspartate family threonine synthase (TIGR00260; EC 4.2.3.1; HMM-score: 75.2)
    Metabolism Amino acid biosynthesis Serine family cysteine synthase B (TIGR01138; EC 2.5.1.47; HMM-score: 68)
    Cellular processes Cellular processes Biosynthesis of natural products 2,3-diaminopropionate biosynthesis protein SbnA (TIGR03945; HMM-score: 65.9)
    Metabolism Amino acid biosynthesis Serine family cystathionine beta-synthase (TIGR01137; EC 4.2.1.22; HMM-score: 58.5)
    diaminopropionate ammonia-lyase (TIGR03528; EC 4.3.1.15; HMM-score: 53.6)
    Metabolism Energy metabolism Other diaminopropionate ammonia-lyase family (TIGR01747; EC 4.3.1.15; HMM-score: 46.5)
    pyridoxal phosphate-dependent enzymes, D-cysteine desulfhydrase family (TIGR01275; HMM-score: 31.6)
    Metabolism Amino acid biosynthesis Aromatic amino acid family tryptophan synthase, beta subunit (TIGR00263; EC 4.2.1.20; HMM-score: 28.9)
    Unknown function Enzymes of unknown specificity pyridoxal-phosphate dependent TrpB-like enzyme (TIGR01415; HMM-score: 27.7)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other cysteate synthase (TIGR03844; EC 2.5.1.76; HMM-score: 17.4)
    Metabolism Energy metabolism Methanogenesis cysteate synthase (TIGR03844; EC 2.5.1.76; HMM-score: 17.4)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    NADP_Rossmann (CL0063) PALP; Pyridoxal-phosphate dependent enzyme (PF00291; HMM-score: 276.3)

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

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

⊟Localization[edit | edit source]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9415
    • Cytoplasmic Membrane Score: 0.0047
    • Cell wall & surface Score: 0.0005
    • Extracellular Score: 0.0533
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.016412
    • TAT(Tat/SPI): 0.000648
    • LIPO(Sec/SPII): 0.001021
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MTTNTVTLQTAHIVSLGDIEEAKASIKPFIRRTPLIKSMYLSQSITKGNVFLKLENMQFTGSFKFRGASNKINHLSDEQKAKGIIGASAGNHAQGVALTAKLLGIDATIVMPETAPIAKQNATKGYGAKVILKGKNFNETRLYMEELAKENGMTIVHPYDDKFVMAGQGTIGLEILDDIWNVNTVIVPVGGGGLIAGIATALKSFNPSIHIIGVQSENVHGMTESFYKRDLTEHRVDSTIADGCDVKVPGEQTYEVVKHLVDEFILVTEEEIEHAMKDLMQRAKIITEGAGALPTAAILSGKIDKKWLEGKNVVALVSGGNVDLTRVSGVIEHGLNIADTSKGVVG

⊟Experimental data[edit | edit source]

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

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: Rex* (repression) regulon, CodY (repression) regulon
    Rex*(TF)important in Energy metabolism;  regulation predicted or transferred from N315 and NCTC 8325  [2]
    CodY(TF)important in Amino acid metabolism;  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. ↑ 2.0 2.1 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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