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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_001380
  • pan locus tag?: SAUPAN003809000
  • symbol: dapB
  • pan gene symbol?: dapB
  • synonym:
  • product: 4-hydroxy-tetrahydrodipicolinate reductase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_001380
  • symbol: dapB
  • product: 4-hydroxy-tetrahydrodipicolinate reductase
  • replicon: chromosome
  • strand: +
  • coordinates: 1395776..1396498
  • length: 723
  • 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
    GTGAAAATATTACTAATTGGCTATGGTGCAATGAATCAACGCGTTGCTAGATTAGCAGAA
    GAAAAAGGACATGAAATCGTTGGGGTCATTGAAAATACACCGAAAGCAACAACGCCATAT
    CAACAATATCAACATATTGCAGATGTTAAAGATGCCGATGTTGCAATAGATTTTTCAAAT
    CCAAATCTGCTGTTCCCATTATTAGATGAAGAGTTTCATTTGCCATTAGTTGTGGCAACA
    ACTGGCGAGAAAGAAAAACTACTTAATAAGTTAGATGAATTGAGTCAAAATATGCCTGTA
    TTTTTCAGCGCGAACATGAGTTATGGCGTTCATGCACTGACTAAAATTTTAGCAGCTGCT
    GTTCCCCTACTTGATGATTTCGACATCGAATTGATTGAGGCACATCATAATAAAAAAGTA
    GATGCACCAAGTGGTACGTTAGAAAAATTGTATGATGTGATCGTATCTTTGAAAGAAAAT
    GTAACACCTGTGTATGATAGACATGAATTAAATGAAAAACGCCAGCCACAAGATATTGGT
    ATACATTCTATTCGTGGAGGTACGATTGTCGGTGAACATGAAGTTCTATTTGCTGGCACT
    GATGAAACGATTCAAATCACGCATCGTGCACAATCAAAAGATATTTTTGCGAATGGTGCA
    ATACAAGCAGCAGAACGCTTAGTTAATAAACCAAACGGCTTTTATACGTTTGACAACTTA
    TAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    723

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_001380
  • symbol: DapB
  • description: 4-hydroxy-tetrahydrodipicolinate reductase
  • length: 240
  • theoretical pI: 5.00438
  • theoretical MW: 26738.2
  • GRAVY: -0.21375

⊟Function[edit | edit source]

  • reaction:
    EC 1.17.1.8?  ExPASy
    4-hydroxy-tetrahydrodipicolinate reductase (S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + NAD(P)+ + H2O = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + NAD(P)H
  • TIGRFAM:
    Metabolism Amino acid biosynthesis Aspartate family 4-hydroxy-tetrahydrodipicolinate reductase (TIGR00036; EC 1.17.1.8; HMM-score: 171.8)
    and 2 more
    Metabolism Amino acid biosynthesis Aspartate family dihydrodipicolinate reductase (TIGR02130; EC 1.17.1.8; HMM-score: 25.8)
    Metabolism Energy metabolism Pentose phosphate pathway 6-phosphogluconate dehydrogenase (decarboxylating) (TIGR00872; EC 1.1.1.44; HMM-score: 15)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    GADPH_aa-bio_dh (CL0139) DapB_C; Dihydrodipicolinate reductase, C-terminus (PF05173; HMM-score: 136.6)
    and 5 more
    NADP_Rossmann (CL0063) DapB_N; Dihydrodipicolinate reductase, N-terminus (PF01113; HMM-score: 61.5)
    GFO_IDH_MocA; Oxidoreductase family, NAD-binding Rossmann fold (PF01408; HMM-score: 13.9)
    F420_oxidored; NADP oxidoreductase coenzyme F420-dependent (PF03807; HMM-score: 13.6)
    TrkA_N; TrkA-N domain (PF02254; HMM-score: 12.9)
    TPR (CL0020) Cse1; Cse1 (PF08506; HMM-score: 12.8)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.67
    • Cytoplasmic Membrane Score: 0.01
    • Cellwall Score: 0.15
    • Extracellular Score: 0.17
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9988
    • Cytoplasmic Membrane Score: 0.0003
    • Cell wall & surface Score: 0.0005
    • Extracellular Score: 0.0003
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.018186
    • TAT(Tat/SPI): 0.000324
    • LIPO(Sec/SPII): 0.002585
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MKILLIGYGAMNQRVARLAEEKGHEIVGVIENTPKATTPYQQYQHIADVKDADVAIDFSNPNLLFPLLDEEFHLPLVVATTGEKEKLLNKLDELSQNMPVFFSANMSYGVHALTKILAAAVPLLDDFDIELIEAHHNKKVDAPSGTLEKLYDVIVSLKENVTPVYDRHELNEKRQPQDIGIHSIRGGTIVGEHEVLFAGTDETIQITHRAQSKDIFANGAIQAAERLVNKPNGFYTFDNL

⊟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: CodY (repression) regulon
    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. ↑ 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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