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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_002009
  • pan locus tag?: SAUPAN005303000
  • symbol: ilvD
  • pan gene symbol?: ilvD
  • synonym:
  • product: dihydroxy-acid dehydratase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_002009
  • symbol: ilvD
  • product: dihydroxy-acid dehydratase
  • replicon: chromosome
  • strand: +
  • coordinates: 2021575..2023263
  • length: 1689
  • 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
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    ATGCGAAGCGACATGATCAAAAAAGGAGATCACCAAGCACCAGCAAGAAGTCTTTTACAT
    GCCACGGGCGCGCTAAAAAGTCCAACTGATATGAACAAACCATTTGTAGCTATTTGTAAC
    TCTTATATTGATATTGTTCCTGGACATGTTCATTTAAGAGAGCTTGCAGATATAGCTAAA
    GAAGCAATTAGAGAAGCCGGTGCCATTCCATTTGAATTCAATACAATTGGTGTTGATGAT
    GGAATAGCTATGGGACATATCGGAATGCGATATTCTCTACCATCACGTGAAATTATTGCA
    GATGCAGCTGAAACTGTAATTAACGCTCATTGGTTTGACGGCGTATTTTACATTCCTAAT
    TGTGACAAGATTACACCCGGTATGATTTTAGCAGCCATGAGGACAAACGTACCAGCTATC
    TTTTGCTCTGGTGGACCAATGAAAGCTGGCTTATCTGCACATGGAAAAGCATTAACACTT
    TCATCAATGTTTGAAGCAGTCGGCGCATTTAAAGAAGGATCGATTTCTAAAGAAGAATTT
    TTAGATATGGAACAAAATGCCTGCCCTACTTGTGGTTCATGTGCTGGGATGTTTACTGCA
    AATTCAATGAACTGTTTGATGGAAGTTTTAGGTCTAGCATTACCATACAACGGTACTGCA
    CTTGCAGTCAGTGATCAGCGACGCGAAATGATTCGCCAAGCAGCTTTTAAATTAGTTGAA
    AATATTAAAAATGATTTAAAACCACGTGATATCGTTACTCGCGAAGCAATTGATGATGCA
    TTTGCACTTGATATGGCTATGGGTGGTTCAACAAACACGGTACTGCATACGTTAGCCATT
    GCCAATGAAGCTGGTATTGATTATGACTTAGAGCGCATTAATGCTATTGCCAAACGCACA
    CCATATTTATCAAAAATAGCACCTAGTTCATCGTATTCAATGCATGATGTGCATGAAGCT
    GGTGGCGTCCCAGCAATTATTAATGAATTGATGAAGAAAGATGGCACGTTACACCCAGAT
    AGAATCACAGTTACTGGCAAAACGTTACGTGAAAATAACGAAGGCAAAGAAATTAAGAAC
    TTTGATGTCATTCACCCTCTTGATGCACCATATGATGCACAAGGTGGTTTATCTATCTTA
    TTTGGTAATATCGCCCCTAAAGGCGCAGTTATTAAAGTTGGCGGCGTTGATCCATCTATC
    AAAACATTTACTGGGAAAGCAATTTGTTTCAATTCGCATGATGAAGCTGTTGAAGCAATA
    GACAATCGTACCGTTCGTGCAGGCCACGTCGTTGTCATTAGATATGAAGGACCTAAAGGT
    GGACCAGGTATGCCTGAAATGTTAGCACCTACTTCCTCTATTGTTGGTCGCGGCTTAGGT
    AAAGATGTTGCATTAATTACTGATGGGCGTTTTTCCGGTGCCACAAGAGGTATTGCAGTT
    GGTCATATTTCCCCTGAAGCTGCATCTGGTGGACCAATTGCCTTAATTGAAGATGGAGAT
    GAGATTACTATTGATTTAACAAATCGTACATTAAACGTAAACCAGCCTGAAGATGTTCTA
    GCGCGTCGCCGAGAATCTTTAACACCATTTAAAGCGAAAGTAAAAACAGGTTATCTAGCT
    CGTTATACTGCCCTAGTAACTAGCGCAAATACAGGTGGCGTCATGCAAGTCCCTGAGAAT
    TTAATTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1689

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_002009
  • symbol: IlvD
  • description: dihydroxy-acid dehydratase
  • length: 562
  • theoretical pI: 6.24187
  • theoretical MW: 60021.5
  • GRAVY: -0.0540925

⊟Function[edit | edit source]

  • reaction:
    EC 4.2.1.9?  ExPASy
    Dihydroxy-acid dehydratase 2,3-dihydroxy-3-methylbutanoate = 3-methyl-2-oxobutanoate + H2O
  • TIGRFAM:
    Metabolism Amino acid biosynthesis Pyruvate family dihydroxy-acid dehydratase (TIGR00110; EC 4.2.1.9; HMM-score: 784.1)
    and 2 more
    Metabolism Energy metabolism Entner-Doudoroff phosphogluconate dehydratase (TIGR01196; EC 4.2.1.12; HMM-score: 285.5)
    Unknown function Enzymes of unknown specificity putative dehydratase, YjhG/YagF family (TIGR03432; HMM-score: 223.1)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    no clan defined ILVD_EDD_N; Dihydroxy-acid/6-phosphogluconate dehydratase N-terminal (PF00920; HMM-score: 447.6)
    and 2 more
    Leu-IlvD (CL0364) ILV_EDD_C; Dihydroxy-acid/6-phosphogluconate dehydratase C-terminal (PF24877; HMM-score: 256.2)
    NADP_Rossmann (CL0063) adh_short_C2; Enoyl-(Acyl carrier protein) reductase (PF13561; HMM-score: 13.4)

⊟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: 0.9218
    • Cytoplasmic Membrane Score: 0.0115
    • Cell wall & surface Score: 0.0003
    • Extracellular Score: 0.0664
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.013615
    • TAT(Tat/SPI): 0.0042
    • LIPO(Sec/SPII): 0.004851
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MRSDMIKKGDHQAPARSLLHATGALKSPTDMNKPFVAICNSYIDIVPGHVHLRELADIAKEAIREAGAIPFEFNTIGVDDGIAMGHIGMRYSLPSREIIADAAETVINAHWFDGVFYIPNCDKITPGMILAAMRTNVPAIFCSGGPMKAGLSAHGKALTLSSMFEAVGAFKEGSISKEEFLDMEQNACPTCGSCAGMFTANSMNCLMEVLGLALPYNGTALAVSDQRREMIRQAAFKLVENIKNDLKPRDIVTREAIDDAFALDMAMGGSTNTVLHTLAIANEAGIDYDLERINAIAKRTPYLSKIAPSSSYSMHDVHEAGGVPAIINELMKKDGTLHPDRITVTGKTLRENNEGKEIKNFDVIHPLDAPYDAQGGLSILFGNIAPKGAVIKVGGVDPSIKTFTGKAICFNSHDEAVEAIDNRTVRAGHVVVIRYEGPKGGPGMPEMLAPTSSIVGRGLGKDVALITDGRFSGATRGIAVGHISPEAASGGPIALIEDGDEITIDLTNRTLNVNQPEDVLARRRESLTPFKAKVKTGYLARYTALVTSANTGGVMQVPENLI

⊟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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