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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2341 [new locus tag: SACOL_RS12295 ]
  • pan locus tag?: SAUPAN005845000
  • symbol: fni
  • pan gene symbol?: fni
  • synonym:
  • product: isopentenyl pyrophosphate isomerase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SACOL2341 [new locus tag: SACOL_RS12295 ]
  • symbol: fni
  • product: isopentenyl pyrophosphate isomerase
  • replicon: chromosome
  • strand: -
  • coordinates: 2401035..2402084
  • length: 1050
  • essential: unknown other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    ATGAGTGATTTTCAAAGAGAACAGAGAAAAAATGAACATGTTGAAATAGCAATGGCCCAA
    TCTGACGCAATGCATTCAGATTTTGATAAGATGCGTTTTGTGCATCATTCTATCCCATCA
    ATTAATGTAAATGATATCGATTTGACATCACAGACGCCTGACTTAACGATGGCATATCCG
    GTTTATATTAATGCAATGACGGGTGGTAGCGAGTGGACGAAAAACATCAATGAAAAGCTA
    GCTGTAGTTGCAAGAGAAACTGGCTTAGCGATGGCAGTTGGATCAACACATGCGGCATTG
    AGAAATCCACGCATGGCTGAGACGTTTACGATTGCGCGAAAAATGAATCCTGAAGGCATG
    ATTTTTAGCAATGTTGGTGCGGACGTACCAGTAGAAAAGGCTTTGGAAGCAGTTGAATTA
    CTTGAGGCACAAGCGTTACAAATCCATGTTAATTCTCCTCAAGAATTAGTTATGCCTGAA
    GGGAATCGTGAATTTGTGACTTGGTTAGATAATATAGCGTCGATTGTATCACGAGTGTCT
    GTTCCAGTCATTATAAAAGAAGTTGGATTTGGTATGAGCAAAGAATTAATGCATGACTTA
    CAACAAATAGGCGTCAAGTATGTCGATGTTAGTGGCAAAGGTGGTACTAACTTTGTAGAT
    ATTGAAAATGAACGTCGTGCAAATAAAGATATGGATTACTTATCATCATGGGGACAGTCT
    ACAGTTGAGTCATTACTTGAAACAACGGCTTATCAAAGCGAAATTTCAGTTTTCGCGAGT
    GGTGGTTTACGTACACCACTCGATGCAATTAAAAGTTTAGCACTTGGTGCAAAGGCAACT
    GGTATGTCACGTCCGTTTTTAAATCAAGTTGAAAATAATGGCATTGCACATACAGTAGCT
    TATGTAGAATCATTTATTGAACACATGAAATCAATAATGACGATGTTAGATGCTAAAAAT
    ATTGACGACTTAACACAAAAACAAATCGTATTTAGTCCGGAAATATTGTCATGGATAGAA
    CAACGTAACTTGAATATACATCGAGGATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1050

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SACOL2341 [new locus tag: SACOL_RS12295 ]
  • symbol: Fni
  • description: isopentenyl pyrophosphate isomerase
  • length: 349
  • theoretical pI: 5.0077
  • theoretical MW: 38769.9
  • GRAVY: -0.201719

Function[edit source | edit]

  • reaction:
    EC 5.3.3.2?  ExPASy
    Isopentenyl-diphosphate Delta-isomeraseIsopentenyl diphosphate = dimethylallyl diphosphate
  • TIGRFAM:
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOtherisopentenyl-diphosphate delta-isomerase, type 2 (TIGR02151; EC 5.3.3.2; HMM-score: 426.4)
    heme/flavin dehydrogenase, mycofactocin system (TIGR03966; EC 1.-.-.-; HMM-score: 28.6)
    MetabolismEnergy metabolismOtherL-lactate oxidase (TIGR02708; EC 1.1.3.-; HMM-score: 16.2)
    MetabolismEnergy metabolismOtherdeoxyribose-phosphate aldolase (TIGR00126; EC 4.1.2.4; HMM-score: 15.3)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesOtherdeoxyribose-phosphate aldolase (TIGR00126; EC 4.1.2.4; HMM-score: 15.3)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesPurine ribonucleotide biosynthesisinosine-5'-monophosphate dehydrogenase (TIGR01302; EC 1.1.1.205; HMM-score: 14.8)
    putative enoyl-[acyl-carrier-protein] reductase II (TIGR03151; EC 1.3.1.-; HMM-score: 13.9)
  • TheSEED:  
    Fatty Acids, Lipids, and IsoprenoidsIsoprenoidsArchaeal lipids Isopentenyl-diphosphate delta-isomerase, FMN-dependent (EC 5.3.3.2) 
    IsoprenoidsIsoprenoid Biosynthesis Isopentenyl-diphosphate delta-isomerase, FMN-dependent (EC 5.3.3.2) 
    IsoprenoidsIsoprenoid Biosynthesis: Interconversions Isopentenyl-diphosphate delta-isomerase, FMN-dependent (EC 5.3.3.2) 
  • PFAM:
    TIM_barrel (CL0036) FMN_dh; FMN-dependent dehydrogenase (PF01070; HMM-score: 85.5)
    Glu_synthase; Conserved region in glutamate synthase (PF01645; HMM-score: 25.8)
    IMPDH; IMP dehydrogenase / GMP reductase domain (PF00478; HMM-score: 17.7)
    DHO_dh; Dihydroorotate dehydrogenase (PF01180; HMM-score: 13.7)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors: FMN, Mg2+, NADPH
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • 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
    • Ymax: 0.105
    • Ymax_pos: 11
    • Cmax: 0.117
    • Cmax_pos: 59
    • Smax: 0.138
    • Smax_pos: 2
    • Smean: 0.111
    • D: 0.107
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MSDFQREQRKNEHVEIAMAQSDAMHSDFDKMRFVHHSIPSINVNDIDLTSQTPDLTMAYPVYINAMTGGSEWTKNINEKLAVVARETGLAMAVGSTHAALRNPRMAETFTIARKMNPEGMIFSNVGADVPVEKALEAVELLEAQALQIHVNSPQELVMPEGNREFVTWLDNIASIVSRVSVPVIIKEVGFGMSKELMHDLQQIGVKYVDVSGKGGTNFVDIENERRANKDMDYLSSWGQSTVESLLETTAYQSEISVFASGGLRTPLDAIKSLALGAKATGMSRPFLNQVENNGIAHTVAYVESFIEHMKSIMTMLDAKNIDDLTQKQIVFSPEILSWIEQRNLNIHRG

Experimental data[edit source | edit]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [1] [2] [3]
    quantitative data / protein copy number per cell: 249 [4]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

Protein synthesis (provided by Aureolib)[edit source | edit]

Protein stability[edit source | edit]

  • half-life: 28.3 h [5]

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS ONE: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  2. Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J. Proteome Res.: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)
  3. Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int. J. Med. Microbiol.: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)
  4. Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)
  5. Stephan Michalik, Jörg Bernhardt, Andreas Otto, Martin Moche, Dörte Becher, Hanna Meyer, Michael Lalk, Claudia Schurmann, Rabea Schlüter, Holger Kock, Ulf Gerth, Michael Hecker
    Life and death of proteins: a case study of glucose-starved Staphylococcus aureus.
    Mol. Cell Proteomics: 2012, 11(9);558-70
    [PubMed:22556279] [WorldCat.org] [DOI] (I p)

Relevant publications[edit source | edit]