From AureoWiki
Jump to navigation Jump to search

NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_02623
  • pan locus tag?: SAUPAN005845000
  • symbol: SAOUHSC_02623
  • pan gene symbol?: fni
  • synonym:
  • product: isopentenyl pyrophosphate isomerase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_02623
  • symbol: SAOUHSC_02623
  • product: isopentenyl pyrophosphate isomerase
  • replicon: chromosome
  • strand: -
  • coordinates: 2411700..2412749
  • length: 1050
  • essential: yes [1] DEG 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
    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 | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_02623
  • symbol: SAOUHSC_02623
  • description: isopentenyl pyrophosphate isomerase
  • length: 349
  • theoretical pI: 5.0077
  • theoretical MW: 38769.9
  • GRAVY: -0.201719

⊟Function[edit | edit source]

  • reaction:
    EC 5.3.3.2?  ExPASy
    Isopentenyl-diphosphate Delta-isomerase Isopentenyl diphosphate = dimethylallyl diphosphate
  • TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other isopentenyl-diphosphate delta-isomerase, type 2 (TIGR02151; EC 5.3.3.2; HMM-score: 426.4)
    and 6 more
    heme/flavin dehydrogenase, mycofactocin system (TIGR03966; EC 1.-.-.-; HMM-score: 28.6)
    Metabolism Energy metabolism Other L-lactate oxidase (TIGR02708; EC 1.1.3.-; HMM-score: 16.2)
    Metabolism Energy metabolism Other deoxyribose-phosphate aldolase (TIGR00126; EC 4.1.2.4; HMM-score: 15.3)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Other deoxyribose-phosphate aldolase (TIGR00126; EC 4.1.2.4; HMM-score: 15.3)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Purine ribonucleotide biosynthesis inosine-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  :
    • Isopentenyl-diphosphate delta-isomerase, FMN-dependent (EC 5.3.3.2)
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Archaeal lipids  Isopentenyl-diphosphate delta-isomerase, FMN-dependent (EC 5.3.3.2)
    and 2 more
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Isoprenoid Biosynthesis  Isopentenyl-diphosphate delta-isomerase, FMN-dependent (EC 5.3.3.2)
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Isoprenoid 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)
    and 3 more
    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 & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors: FMN, Mg2+, NADPH
  • 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): 0.008927
    • TAT(Tat/SPI): 0.001746
    • LIPO(Sec/SPII): 0.001146
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSDFQREQRKNEHVEIAMAQSDAMHSDFDKMRFVHHSIPSINVNDIDLTSQTPDLTMAYPVYINAMTGGSEWTKNINEKLAVVARETGLAMAVGSTHAALRNPRMAETFTIARKMNPEGMIFSNVGADVPVEKALEAVELLEAQALQIHVNSPQELVMPEGNREFVTWLDNIASIVSRVSVPVIIKEVGFGMSKELMHDLQQIGVKYVDVSGKGGTNFVDIENERRANKDMDYLSSWGQSTVESLLETTAYQSEISVFASGGLRTPLDAIKSLALGAKATGMSRPFLNQVENNGIAHTVAYVESFIEHMKSIMTMLDAKNIDDLTQKQIVFSPEILSWIEQRNLNIHRG

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [2] [3]
  • 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:

⊟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. ↑ Roy R Chaudhuri, Andrew G Allen, Paul J Owen, Gil Shalom, Karl Stone, Marcus Harrison, Timothy A Burgis, Michael Lockyer, Jorge Garcia-Lara, Simon J Foster, Stephen J Pleasance, Sarah E Peters, Duncan J Maskell, Ian G Charles
    Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH).
    BMC Genomics: 2009, 10;291
    [PubMed:19570206] [WorldCat.org] [DOI] (I e)
  2. ↑ Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  4. ↑ 4.0 4.1 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SAOUHSC_02623&oldid=81005"