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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_002539
  • pan locus tag?: SAUPAN006223000
  • symbol: JSNZ_002539
  • pan gene symbol?: —
  • synonym:
  • product: D-lactate dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_002539
  • symbol: JSNZ_002539
  • product: D-lactate dehydrogenase
  • replicon: chromosome
  • strand: -
  • coordinates: 2547334..2548332
  • length: 999
  • 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
    ATGACAAAAATTAAAATCATGAGTGTACGTGATGAAGATATGCCTTATATCAAGGCGTGG
    GCAGAGAAACATCATGTTGAGGTAGATATTACTAAAGAAGCATTAACTGATGACAATGTT
    GAAGGTGTCGCTGGTTATGATGGCTTATCGCTATCACAACAAATACCATTATCAGAACAT
    GTTTATAAACGATTAAATGAACTAGGTATTAAACAAATCGCACAACGTAGTGCTGGATTT
    GATACATATGATTTGGAGTTAGCAAACAAGTATAACTTGATTGTGTCAAATGTGCCGTCA
    TACTCTCCGAATTCAATTGCGGAGTTTGCTGTGAACCAGGCTATTAATGTGGTTCGTCAT
    TTTAATCAAATTCAAACGAAAGTGCGAGAGCATGATTTTAGATGGGAACCTACTATTTTA
    TCGAAATCCATTAAAGATTTAAAAGTAGCTGTTATTGGTACAGGTCGAATTGGCCGTGTA
    GTAGCCGATATATTTGCCAATGGTTATCAAAGTGATGTGGTCGCATACGACCCGTTTCCT
    AATGCTAAAATTGCAACGTATGTCGATTACAAAGATACGATTGAGGAAGCGGTTGAAGGT
    GCTGATATCGTGACATTACATGTACCTGCAACGAAATATAATCATTATCTATTTAATGCT
    GAATTATTTAAACATTTTAAAAAGGGCGCAGTATTTGTCAATTGTGCGAGAGGTTCTTTA
    GTAGATACTAAGGCGTTATTAGACGCATTAGACAATGGTGTGATTAAAAGTGCAGCACTT
    GATACGTATGAATTTGAACGCAAACTTTTCCCAAGTGATCAAAGGGGCAAAACACTGAAC
    GATCCATTGTTAGAATCGTTGATTGACAGGGAAGATGTCATATTAACACCACATATTGCG
    TTTTATACTGAAGCTGCAGTTAAAAATCTAATTGTCGATGCATTAGATGCAACATTAGAT
    GTATTGCAGACTGGAGATACTAGGTTACGAGTAAATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    999

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_002539
  • symbol: JSNZ_002539
  • description: D-lactate dehydrogenase
  • length: 332
  • theoretical pI: 5.25933
  • theoretical MW: 37219
  • GRAVY: -0.194578

⊟Function[edit | edit source]

  • TIGRFAM:
    Metabolism Amino acid biosynthesis Serine family phosphoglycerate dehydrogenase (TIGR01327; EC 1.1.1.95; HMM-score: 168.2)
    and 6 more
    Cellular processes Cellular processes Sporulation and germination dipicolinic acid synthetase, A subunit (TIGR02853; HMM-score: 18)
    2-hydroxy-3-oxopropionate reductase (TIGR01505; EC 1.1.1.60; HMM-score: 16.8)
    glycerol-3-phosphate dehydrogenase (NAD(+)) (TIGR03376; EC 1.1.1.8; HMM-score: 14)
    Metabolism Energy metabolism Sugars inositol 2-dehydrogenase (TIGR04380; EC 1.1.1.18; HMM-score: 14)
    glutamate synthase, small subunit (TIGR01318; HMM-score: 12.6)
    Metabolism Energy metabolism Amino acids and amines 3-hydroxyisobutyrate dehydrogenase (TIGR01692; EC 1.1.1.31; HMM-score: 12.2)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    NADP_Rossmann (CL0063) 2-Hacid_dh_C; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (PF02826; HMM-score: 159)
    and 14 more
    2-Hacid_dh; D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain (PF00389; HMM-score: 97)
    NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase (PF03446; HMM-score: 29.2)
    F420_oxidored; NADP oxidoreductase coenzyme F420-dependent (PF03807; HMM-score: 23.6)
    NAD_Gly3P_dh_N; NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus (PF01210; HMM-score: 21.9)
    KARI_N; Acetohydroxy acid isomeroreductase, NADPH-binding domain (PF07991; HMM-score: 21.2)
    HUP (CL0039) UDPG_MGDP_dh_C; UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain (PF03720; HMM-score: 20.4)
    NADP_Rossmann (CL0063) Gp_dh_N; Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain (PF00044; HMM-score: 19)
    3HCDH_N; 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain (PF02737; HMM-score: 17.7)
    AlaDh_PNT_C; Alanine dehydrogenase/PNT, C-terminal domain (PF01262; HMM-score: 17.3)
    GFO_IDH_MocA; Oxidoreductase family, NAD-binding Rossmann fold (PF01408; HMM-score: 14.7)
    PglD_N; PglD N-terminal domain (PF17836; HMM-score: 13.7)
    Sacchrp_dh_NADP; Saccharopine dehydrogenase NADP binding domain (PF03435; HMM-score: 13.4)
    no clan defined CRASP-2; Complement regulator-acquiring surface protein 2 (PF22487; HMM-score: 13.3)
    NADP_Rossmann (CL0063) TrkA_N; TrkA-N domain (PF02254; HMM-score: 13.2)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9963
    • Cytoplasmic Membrane Score: 0.0003
    • Cell wall & surface Score: 0
    • Extracellular Score: 0.0034
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.008111
    • TAT(Tat/SPI): 0.000323
    • LIPO(Sec/SPII): 0.000661
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MTKIKIMSVRDEDMPYIKAWAEKHHVEVDITKEALTDDNVEGVAGYDGLSLSQQIPLSEHVYKRLNELGIKQIAQRSAGFDTYDLELANKYNLIVSNVPSYSPNSIAEFAVNQAINVVRHFNQIQTKVREHDFRWEPTILSKSIKDLKVAVIGTGRIGRVVADIFANGYQSDVVAYDPFPNAKIATYVDYKDTIEEAVEGADIVTLHVPATKYNHYLFNAELFKHFKKGAVFVNCARGSLVDTKALLDALDNGVIKSAALDTYEFERKLFPSDQRGKTLNDPLLESLIDREDVILTPHIAFYTEAAVKNLIVDALDATLDVLQTGDTRLRVN

⊟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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