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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1587 [new locus tag: NWMN_RS08905 ]
  • pan locus tag?: SAUPAN004319000
  • symbol: citC
  • pan gene symbol?: citC
  • synonym:
  • product: isocitrate dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_1587 [new locus tag: NWMN_RS08905 ]
  • symbol: citC
  • product: isocitrate dehydrogenase
  • replicon: chromosome
  • strand: -
  • coordinates: 1758293..1759561
  • length: 1269
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

⊟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
    ATAGATGCTGCTGTTGAGAAAGCCTATAATGGCGAAAAACGCATTGAATGGAAAGAAGTG
    CTAGCTGGCCAAAAAGCATTTGATACAACTGGTGAATGGTTACCTCAAGAAACACTTGAT
    ACAATTAAAGAATATTTAATTGCTGTTAAAGGACCTTTAACAACACCAATTGGTGGTGGT
    ATTAGATCATTAAATGTGGCTTTACGCCAAGAATTAGATTTATTTACTTGCTTAAGACCG
    GTACGTTGGTTTAAAGGAGTACCATCACCTGTTAAACGTCCACAAGATGTTGATATGGTT
    ATTTTCCGTGAAAATACTGAAGACATTTATGCTGGTATTGAATTTAAAGAAGGTACAACA
    GAAGTTAAAAAGGTAATTGACTTCTTACAAAACGAAATGGGTGCGACAAACATTCGATTC
    CCAGAAACTTCAGGTATTGGTATTAAACCAGTTTCTAAAGAAGGAACTGAGCGATTAGTT
    AGAGCAGCTATACAATATGCTATCGATAATAACCGTAAATCAGTTACTTTAGTTCATAAA
    GGTAATATTATGAAATTTACAGAAGGCTCATTTAAGCAGTGGGGTTACGATTTAGCATTA
    TCTGAATTTGGTGATCAAGTATTCACTTGGCAACAATATGACGAAATTGTTGAAAATGAA
    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: NWMN_1587 [new locus tag: NWMN_RS08905 ]
  • symbol: CitC
  • description: isocitrate dehydrogenase
  • length: 422
  • theoretical pI: 4.56927
  • theoretical MW: 46422.3
  • GRAVY: -0.231043

⊟Function[edit | edit source]

  • reaction:
    EC 1.1.1.41?  ExPASy
    Isocitrate dehydrogenase (NAD+) Isocitrate + NAD+ = 2-oxoglutarate + CO2 + NADH
    EC 1.1.1.42?  ExPASy
    Isocitrate dehydrogenase (NADP+) Isocitrate + NADP+ = 2-oxoglutarate + CO2 + NADPH
  • TIGRFAM:
    Metabolism Energy metabolism TCA cycle isocitrate dehydrogenase, NADP-dependent (TIGR00183; EC 1.1.1.42; HMM-score: 700)
    and 5 more
    isopropylmalate/isohomocitrate dehydrogenases (TIGR02088; HMM-score: 229.8)
    Metabolism Energy metabolism TCA cycle isocitrate dehydrogenase (TIGR02924; EC 1.1.1.-; HMM-score: 217.2)
    Metabolism Energy metabolism TCA cycle isocitrate dehydrogenase, NAD-dependent (TIGR00175; EC 1.1.1.41; HMM-score: 198.8)
    Metabolism Energy metabolism Other tartrate dehydrogenase (TIGR02089; EC 1.1.1.93; HMM-score: 154.7)
    Metabolism Amino acid biosynthesis Pyruvate family 3-isopropylmalate dehydrogenase (TIGR00169; EC 1.1.1.85; HMM-score: 124.3)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    Iso_DH (CL0270) Iso_dh; Isocitrate/isopropylmalate dehydrogenase (PF00180; HMM-score: 404.4)

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

  • domains:
  • modifications:
  • cofactors: Mg2+, Mn2+
  • 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
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • 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]

⊟Protein sequence[edit | edit source]

  • MTAEKITQGTEGLNVPNEPIIPFIIGDGIGPDIWKAASRVIDAAVEKAYNGEKRIEWKEVLAGQKAFDTTGEWLPQETLDTIKEYLIAVKGPLTTPIGGGIRSLNVALRQELDLFTCLRPVRWFKGVPSPVKRPQDVDMVIFRENTEDIYAGIEFKEGTTEVKKVIDFLQNEMGATNIRFPETSGIGIKPVSKEGTERLVRAAIQYAIDNNRKSVTLVHKGNIMKFTEGSFKQWGYDLALSEFGDQVFTWQQYDEIVENEGRDAANAAQEKAEKEGKIIIKDSIADIFLQQILTRPAEHDVVATMNLNGDYISDALAAQVGGIGIAPGANINYETGHAIFEATHGTAPKYAGLNKVNPSSVILSSVLMLEHLGWQEAADKITDSIEDTIASKVVTYDFARLMDGAEEVSTSAFADELIKNLK

⊟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:
    NWMN_1483(dnaK)molecular chaperone DnaK  [1] (data from MRSA252)
    NWMN_1096(ftsZ)cell division protein FtsZ  [1] (data from MRSA252)
    NWMN_0509(fus)elongation factor G  [1] (data from MRSA252)
    NWMN_0961(pdhC)branched-chain alpha-keto acid dehydrogenase subunit E2  [1] (data from MRSA252)
    NWMN_0962(pdhD)dihydrolipoamide dehydrogenase  [1] (data from MRSA252)
    NWMN_0162(pflB)formate acetyltransferase  [1] (data from MRSA252)
    NWMN_0959(phdA)pyruvate dehydrogenase E1 component, alpha subunit  [1] (data from MRSA252)
    NWMN_0960(phdB)pyruvate dehydrogenase E1 component, beta subunit  [1] (data from MRSA252)
    NWMN_1592(pykA)pyruvate kinase  [1] (data from MRSA252)
    NWMN_2152(rplC)50S ribosomal protein L3  [1] (data from MRSA252)
    NWMN_2140(rplE)50S ribosomal protein L5  [1] (data from MRSA252)
    NWMN_0501(rplJ)50S ribosomal protein L10  [1] (data from MRSA252)
    NWMN_2133(rplO)50S ribosomal protein L15  [1] (data from MRSA252)
    NWMN_1151(rplS)50S ribosomal protein L19  [1] (data from MRSA252)
    NWMN_2147(rplV)50S ribosomal protein L22  [1] (data from MRSA252)
    NWMN_2150(rplW)50S ribosomal protein L23  [1] (data from MRSA252)
    NWMN_1166(rpsB)30S ribosomal protein S2  [1] (data from MRSA252)
    NWMN_2146(rpsC)30S ribosomal protein S3  [1] (data from MRSA252)
    NWMN_2135(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    NWMN_2143(rpsQ)30S ribosomal protein S17  [1] (data from MRSA252)
    NWMN_1325(sucB)dihydrolipoamide succinyltransferase  [1] (data from MRSA252)
    NWMN_0510(tufA)elongation factor Tu  [1] (data from MRSA252)
    NWMN_0811hypothetical protein  [1] (data from MRSA252)
    NWMN_1382DNA-binding protein HU  [1] (data from MRSA252)
    NWMN_1604universal stress protein family protein  [1] (data from MRSA252)
    NWMN_2086alkaline shock protein 23  [1] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: CcpA regulon
    CcpA(TF)important in Carbon catabolism; RegPrecise    transcription unit transferred from N315 data RegPrecise 

⊟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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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