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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_000127
  • pan locus tag?: SAUPAN001025000
  • symbol: rocD
  • pan gene symbol?: argD
  • synonym:
  • product: ornithine--oxo-acid transaminase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_000127
  • symbol: rocD
  • product: ornithine--oxo-acid transaminase
  • replicon: chromosome
  • strand: -
  • coordinates: 150616..151800
  • length: 1185
  • 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
    1081
    1141
    ATGAATTCAATCATTGAATTAACTGATTATTATAGCTCTAATAATTATGCACCACTTAAG
    CTTGTCATTTCTAAAGGTAAAGGTGTCAAAGTTTGGGATACTGATGGCAAACAATATATA
    GATTGCATTTCGGGTTTTTCAGTTGCAAACCAAGGCCATTGTCATCCAACAATTGTTAAA
    GCGATGACAGAACAAGCTTCAAAGTTGTCTATCATTTCACGTGTCCTTTATAGTGACAAT
    CTCGGGAAATGGGAAGAAAAAATTTGTCATCTTGCTAAGAAAGACAAAGTACTCCCCCTT
    AACTCTGGTACTGAAGCTGTTGAAGCAGCCATTAAAATTGCTAGAAAATGGGGCTCTGAA
    GTTAAAGGCATTACTGACGGACAAGTTGAAATCATCGCTATGAATAACAATTTTCACGGT
    CGTACACTTGGCTCATTATCACTATCTAACCACGACGCATATAAAGCAGGATTTCACCCC
    CTACTTCAAGGCACTACAACTGTAGATTTTGGAGACATTGAACAATTAACACAAGCTATT
    TCACCAAATACAGCAGCAATTATTTTGGAACCAATTCAAGGTGAAGGTGGCGTTAATATA
    CCACCGAAAGGATATATTCAAGCTGTGCGTCATCTATGTGATAAATATCAAATATTATTG
    ATTGCAGATGAAATTCAAGTTGGTCTTGGTAGAACTGGGAAATGGTTTGCGATGGAATGG
    GAGCAAGTTGTTCCAGACATTTATATTTTAGGTAAGGCATTGGGTGGCGGCTTATACCCT
    GTATCTGCTGTACTTGCAAATAATGATGTCATGCGTGTTCTAACACCAGGTACACATGGT
    TCGACATTTGGTGGTAACCCTTTAGCCATTGCAATATCGACGGCAGCGCTTGATGTACTT
    AAAGATGAACAACTGGTTGAACGATCAGAACGCTTAGGTTCATTTTTATTAAAAGCGTTG
    CTACAACTTAAACATCCTAGTATTAAAGAAATTAGAGGTCGTGGTTTATTTATAGGCATA
    GAGCTTAACACAGATGCTGCACCTTTTGTGGATCAACTGATTCAACGTGGAATCTTGTGC
    AAAGACACGCATCGTACTATCATTCGATTGTCACCACCTCTAGTCATTGATAAAGAGGAA
    ATCCATCAAATTGTTGCAGCTTTTCAAGACGTTTTTAAAAATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1185

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_000127
  • symbol: RocD
  • description: ornithine--oxo-acid transaminase
  • length: 394
  • theoretical pI: 7.10114
  • theoretical MW: 43083.4
  • GRAVY: -0.0271574

⊟Function[edit | edit source]

  • reaction:
    EC 2.6.1.13?  ExPASy
    Ornithine aminotransferase L-ornithine + a 2-oxo acid = L-glutamate 5-semialdehyde + an L-amino acid
  • TIGRFAM:
    ornithine--oxo-acid transaminase (TIGR01885; EC 2.6.1.13; HMM-score: 486.2)
    transaminase, acetylornithine/succinylornithine family (TIGR00707; HMM-score: 423.7)
    and 12 more
    Metabolism Energy metabolism Amino acids and amines succinylornithine transaminase family (TIGR03246; EC 2.6.1.81; HMM-score: 325.6)
    Metabolism Central intermediary metabolism Polyamine biosynthesis putrescine aminotransferase (TIGR03372; EC 2.6.1.82; HMM-score: 271.8)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Biotin adenosylmethionine-8-amino-7-oxononanoate transaminase (TIGR00508; EC 2.6.1.62; HMM-score: 261.9)
    Metabolism Central intermediary metabolism Other 4-aminobutyrate transaminase (TIGR00700; EC 2.6.1.19; HMM-score: 244.5)
    Metabolism Central intermediary metabolism Other 2,4-diaminobutyrate 4-transaminase (TIGR00709; EC 2.6.1.-; HMM-score: 212.9)
    Cellular processes Cellular processes Adaptations to atypical conditions diaminobutyrate--2-oxoglutarate aminotransferase (TIGR02407; EC 2.6.1.76; HMM-score: 196.9)
    L-lysine 6-transaminase (TIGR03251; EC 2.6.1.36; HMM-score: 157.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin glutamate-1-semialdehyde-2,1-aminomutase (TIGR00713; EC 5.4.3.8; HMM-score: 144.9)
    Metabolism Central intermediary metabolism Other 4-aminobutyrate aminotransferase (TIGR00699; EC 2.6.1.19; HMM-score: 108.6)
    tyrosine/nicotianamine family aminotransferase (TIGR01265; HMM-score: 13.7)
    Metabolism Energy metabolism Amino acids and amines tyrosine aminotransferase (TIGR01264; EC 2.6.1.5; HMM-score: 13)
    Metabolism Amino acid biosynthesis Histidine family histidinol-phosphate transaminase (TIGR01141; EC 2.6.1.9; HMM-score: 12.3)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    PLP_aminotran (CL0061) Aminotran_3; Aminotransferase class-III (PF00202; HMM-score: 440.2)
    and 6 more
    DegT_DnrJ_EryC1; DegT/DnrJ/EryC1/StrS aminotransferase family (PF01041; HMM-score: 20.1)
    Beta_elim_lyase; Beta-eliminating lyase (PF01212; HMM-score: 20.1)
    Aminotran_1_2; Aminotransferase class I and II (PF00155; HMM-score: 18.2)
    KYNU_C; Kynureninase C-terminal domain (PF22580; HMM-score: 13.7)
    Aminotran_5; Aminotransferase class-V (PF00266; HMM-score: 12.1)
    Cys_Met_Meta_PP; Cys/Met metabolism PLP-dependent enzyme (PF01053; HMM-score: 12)

⊟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: 0.9764
    • Cytoplasmic Membrane Score: 0.0072
    • Cell wall & surface Score: 0.0006
    • Extracellular Score: 0.0158
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.132451
    • TAT(Tat/SPI): 0.000497
    • LIPO(Sec/SPII): 0.001728
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MNSIIELTDYYSSNNYAPLKLVISKGKGVKVWDTDGKQYIDCISGFSVANQGHCHPTIVKAMTEQASKLSIISRVLYSDNLGKWEEKICHLAKKDKVLPLNSGTEAVEAAIKIARKWGSEVKGITDGQVEIIAMNNNFHGRTLGSLSLSNHDAYKAGFHPLLQGTTTVDFGDIEQLTQAISPNTAAIILEPIQGEGGVNIPPKGYIQAVRHLCDKYQILLIADEIQVGLGRTGKWFAMEWEQVVPDIYILGKALGGGLYPVSAVLANNDVMRVLTPGTHGSTFGGNPLAIAISTAALDVLKDEQLVERSERLGSFLLKALLQLKHPSIKEIRGRGLFIGIELNTDAAPFVDQLIQRGILCKDTHRTIIRLSPPLVIDKEEIHQIVAAFQDVFKN

⊟Experimental data[edit | edit source]

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

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: ArgR/AhrC (repression) regulon
    ArgR/AhrC(TF)important in Arginine biosynthesis, Arginine degradation;  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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