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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_001679
  • pan locus tag?: SAUPAN004319000
  • symbol: icd
  • pan gene symbol?: citC
  • synonym:
  • product: NADP-dependent isocitrate dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_001679
  • symbol: icd
  • product: NADP-dependent isocitrate dehydrogenase
  • replicon: chromosome
  • strand: -
  • coordinates: 1715922..1717190
  • length: 1269
  • 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
    ATGACTGCAGAAAAAATTACTCAAGGAACTGAAGGATTAAACGTACCTAATGAACCAATT
    ATCCCATTTATTATCGGTGATGGAATTGGACCGGATATTTGGAAGGCAGCAAGCCGAGTT
    ATAGATGCTGCCGTTGAGAAAGCCTATAATGGCGAAAAACGCATTGAATGGAAAGAAGTG
    CTAGCTGGCCAAAAAGCATTTGATACAACTGGTGAATGGTTACCTCAAGAAACACTTGAT
    ACAATTAAAGAATATTTAATTGCTGTTAAAGGACCTTTAACAACACCAATTGGTGGTGGT
    ATTAGATCATTAAATGTGGCTTTACGCCAAGAATTAGATTTATTTACTTGCTTAAGACCG
    GTACGTTGGTTTAAAGGAGTACCATCACCTGTTAAACGTCCACAAGATGTTGATATGGTT
    ATTTTCCGTGAAAATACTGAAGACATTTATGCTGGTATTGAATTTAAAGAAGATACAACA
    GAAGTTAAAAAGGTAATTGACTTCTTACAAAACGAAATGGGTGCGACAAACATTCGATTC
    CCAGAAACTTCAGGTATTGGTATTAAACCAGTTTCTAAAGAAGGAACTGAGCGATTAGTT
    AGAGCAGCTATACAATATGCTATCGATAATAACCGTAAATCAGTTACTTTAGTTCATAAA
    GGTAATATTATGAAATTTACAGAAGGCTCATTTAAGCAGTGGGGTTATGATTTAGCATTA
    TCTGAATTTGGTGATCAAGTATTCACTTGGCAACAATATGACGAAATTGTTGAAAAAGAA
    GGCAGAGATGCTGCTAATGCTGCTCAAGAAAAAGCTGAAAAAGAAGGCAAGATTATCATT
    AAAGATTCTATTGCTGACATTTTCTTACAACAAATTTTAACTCGTCCAGCTGAGCATGAT
    GTTGTAGCAACTATGAACTTGAATGGTGACTATATTTCAGATGCTTTAGCTGCACAAGTT
    GGTGGTATTGGTATTGCGCCAGGTGCAAACATTAATTATGAAACAGGTCATGCTATTTTT
    GAAGCAACACATGGTACAGCTCCAAAATATGCAGGTTTAAATAAAGTGAATCCATCTTCA
    GTAATTTTAAGTTCTGTATTAATGTTAGAACATTTAGGATGGCAAGAAGCGGCAGATAAG
    ATTACAGATTCAATTGAAGATACAATTGCTTCAAAAGTTGTTACTTATGACTTTGCCCGT
    TTAATGGATGGTGCTGAAGAAGTTTCTACATCAGCATTTGCAGATGAATTGATTAAAAAT
    TTAAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1269

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_001679
  • symbol: Icd
  • description: NADP-dependent isocitrate dehydrogenase
  • length: 422
  • theoretical pI: 4.57621
  • theoretical MW: 46494.4
  • GRAVY: -0.239336

⊟Function[edit | edit source]

  • TIGRFAM:
    Metabolism Energy metabolism TCA cycle isocitrate dehydrogenase, NADP-dependent (TIGR00183; EC 1.1.1.42; HMM-score: 699.6)
    and 5 more
    isopropylmalate/isohomocitrate dehydrogenases (TIGR02088; HMM-score: 229.6)
    Metabolism Energy metabolism TCA cycle isocitrate dehydrogenase (TIGR02924; EC 1.1.1.-; HMM-score: 218.5)
    Metabolism Energy metabolism TCA cycle isocitrate dehydrogenase, NAD-dependent (TIGR00175; EC 1.1.1.41; HMM-score: 197.9)
    Metabolism Energy metabolism Other tartrate dehydrogenase (TIGR02089; EC 1.1.1.93; HMM-score: 154.9)
    Metabolism Amino acid biosynthesis Pyruvate family 3-isopropylmalate dehydrogenase (TIGR00169; EC 1.1.1.85; HMM-score: 125.4)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    Iso_DH (CL0270) Iso_dh; Isocitrate/isopropylmalate dehydrogenase (PF00180; HMM-score: 338.6)

⊟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: 0.9596
    • Cytoplasmic Membrane Score: 0.0021
    • Cell wall & surface Score: 0.0009
    • Extracellular Score: 0.0374
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.004062
    • TAT(Tat/SPI): 0.000276
    • LIPO(Sec/SPII): 0.000429
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MTAEKITQGTEGLNVPNEPIIPFIIGDGIGPDIWKAASRVIDAAVEKAYNGEKRIEWKEVLAGQKAFDTTGEWLPQETLDTIKEYLIAVKGPLTTPIGGGIRSLNVALRQELDLFTCLRPVRWFKGVPSPVKRPQDVDMVIFRENTEDIYAGIEFKEDTTEVKKVIDFLQNEMGATNIRFPETSGIGIKPVSKEGTERLVRAAIQYAIDNNRKSVTLVHKGNIMKFTEGSFKQWGYDLALSEFGDQVFTWQQYDEIVEKEGRDAANAAQEKAEKEGKIIIKDSIADIFLQQILTRPAEHDVVATMNLNGDYISDALAAQVGGIGIAPGANINYETGHAIFEATHGTAPKYAGLNKVNPSSVILSSVLMLEHLGWQEAADKITDSIEDTIASKVVTYDFARLMDGAEEVSTSAFADELIKNLK

⊟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: CcpA regulon
    CcpA(TF)important in Carbon catabolism;  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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