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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2579 [new locus tag: SACOL_RS13510 ]
  • pan locus tag?: SAUPAN006228000
  • symbol: SACOL2579
  • pan gene symbol?: crtP
  • synonym:
  • product: phytoene dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2579 [new locus tag: SACOL_RS13510 ]
  • symbol: SACOL2579
  • product: phytoene dehydrogenase
  • replicon: chromosome
  • strand: -
  • coordinates: 2642387..2643880
  • length: 1494
  • 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
    1321
    1381
    1441
    ATGACTAAACATATCATCGTTATTGGTGGTGGCTTAGGTGGGATTTCTGCAGCAATTCGA
    ATGGCACAAAGTGGCTATTCGGTCTCATTATATGAACAAAATAATCATATAGGAGGCAAA
    GTGAATCGTCATGAATCAGATGGCTTTGGCTTTGATTTAGGTCCATCTATTTTAACGATG
    CCTTATATTTTTGAAAAATTATTCGAATATAGCAAGAAGCAAATGTCAGACTACGTTACA
    ATCAAGCGATTGCCACATCAATGGCGTAGCTTTTTTCCAGATGGAACGACTATCGATTTG
    TATGAAGGTATTAAAGAAACAGGTCAGCATAATGCGATATTGTCGAAACAGGATATAGAG
    GAACTGCAAAATTATTTGAATTATACAAGACGAATCGATCGTATTACTGAAAAAGGGTAT
    TTCAACTATGGTTTAGATACACTATCTCAAATTATTAAATTTCATGGGCCATTAAATGCT
    CTTATTAATTATGATTATGTACATACTATGCAACAGGCCATAGACAAGCGTATCTCGAAT
    CCATACTTGCGACAAATGTTAGGCTATTTTATCAAATATGTAGGTTCTTCATCATACGAT
    GCGCCAGCTGTATTATCTATGTTATTCCATATGCAACAAGAGCAAGGCCTTTGGTATGTA
    GAAGGTGGAATCCATCATTTAGCCAATGCCTTGGAAAAGCTAGCGCGTGAAGAAGGTGTC
    ACAATTCATACAGGTGCACGTGTGGACAATATTAAAACATATCAAAGACGTGTGACGGGT
    GTCAGATTAGATACAGGTGAGTTTGTAAAGGCAGATTATATTATTTCAAATATGGAAGTC
    ATACCTACTTATAAATATTTAATTCACCTTGATACTCAACGATTAAACAAATTAGAGAGG
    GAATTTGAGCCGGCAAGCTCAGGATATGTGATGCATTTAGGTGTTGCTTGCCAATACCCG
    CAATTAGCACATCATAATTTCTTTTTTACGGAAAATGCTTATCTCAATTATCAACAAGTT
    TTTCATGAAAAGGTATTGCCAGATGATCCGACCATTTATCTAGTAAATACGAATAAAACT
    GATCACACACAAGCGCCAGTAGGTTATGAAAATATCAAAGTCTTACCACATATTCCATAT
    ATTCAAGATCAGCCTTTTACCACTGAAGATTATGCGAAGTTTAGGGATAAAATTTTGGAT
    AAATTAGAAAAAATGGGACTTACTGATTTAAGAAAACACATTATTTATGAAGATGTTTGG
    ACACCGGAGGATATTGAAAAAAATTATCGTTCTAATCGTGGTGCAATATATGGTGTTGTA
    GCAGATAAAAAGAAAAACAAAGGATTTAAATTTCCTAAAGAAAGTCAGTATTTTGAAAAC
    TTGTACTTTGTAGGTGGATCAGTAAATCCTGGTGGTGGCATGCCAATGGTTACATTAAGT
    GGGCAACAAGTCGCAGACAAAATAAACGCGCGAGAAGCGAAGAATAGGAAGTGA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1494

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2579 [new locus tag: SACOL_RS13510 ]
  • symbol: SACOL2579
  • description: phytoene dehydrogenase
  • length: 497
  • theoretical pI: 7.93809
  • theoretical MW: 57186.6
  • GRAVY: -0.491549

⊟Function[edit | edit source]

  • ⊞reaction:
    EC 1.14.99.44?  ExPASy
    Diapolycopene oxygenase 4,4'-diapolycopene + 4 AH2 + 4 O2 = 4,4'-diapolycopenedial + 4 A + 6 H2O
  • ⊞TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02734; EC 1.14.99.-; HMM-score: 330.4)
    and 43 more
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other carotene isomerase (TIGR02730; EC 5.-.-.-; HMM-score: 96.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other C-3',4' desaturase CrtD (TIGR02733; EC 1.3.99.-; HMM-score: 87.6)
    squalene-associated FAD-dependent desaturase (TIGR03467; HMM-score: 39.9)
    Unknown function Enzymes of unknown specificity flavoprotein, HI0933 family (TIGR00275; HMM-score: 36.7)
    dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 34.7)
    9,9'-di-cis-zeta-carotene desaturase (TIGR02732; EC 1.3.5.6; HMM-score: 33.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin protoporphyrinogen oxidase (TIGR00562; EC 1.3.3.4; HMM-score: 30.9)
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain (TIGR03197; HMM-score: 30.1)
    mycofactocin system FadH/OYE family oxidoreductase 2 (TIGR03997; EC 1.-.-.-; HMM-score: 28.1)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine glycine oxidase ThiO (TIGR02352; EC 1.4.3.19; HMM-score: 25.1)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin precorrin 3B synthase CobZ (TIGR02485; HMM-score: 22.3)
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA:m(5)U-54 methyltransferase (TIGR00137; EC 2.1.1.74; HMM-score: 22.1)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Chlorophyll and bacteriochlorphyll geranylgeranyl reductase family (TIGR02032; EC 1.3.1.-; HMM-score: 20.7)
    Metabolism Energy metabolism Electron transport flavocytochrome c (TIGR01813; HMM-score: 19)
    Cellular processes Cellular processes Detoxification alkyl hydroperoxide reductase subunit F (TIGR03140; EC 1.8.1.-; HMM-score: 18.3)
    Cellular processes Cellular processes Adaptations to atypical conditions alkyl hydroperoxide reductase subunit F (TIGR03140; EC 1.8.1.-; HMM-score: 18.3)
    mycofactocin system FadH/OYE family oxidoreductase 1 (TIGR03996; EC 1.-.-.-; HMM-score: 17.2)
    glutamate synthase, NADH/NADPH, small subunit (TIGR01317; EC 1.4.1.-; HMM-score: 16.1)
    Metabolism Energy metabolism Electron transport glutathione-disulfide reductase (TIGR01421; EC 1.8.1.7; HMM-score: 15.7)
    Cellular processes Cellular processes Detoxification mercury(II) reductase (TIGR02053; EC 1.16.1.1; HMM-score: 15.7)
    putative selenate reductase, YgfK subunit (TIGR03315; HMM-score: 15.5)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides UDP-galactopyranose mutase (TIGR00031; EC 5.4.99.9; HMM-score: 15)
    Metabolism Energy metabolism Amino acids and amines sarcosine oxidase, alpha subunit family (TIGR01372; HMM-score: 14.8)
    Metabolism Energy metabolism TCA cycle succinate dehydrogenase or fumarate reductase, flavoprotein subunit (TIGR01811; EC 1.3.99.1; HMM-score: 14.7)
    Metabolism Energy metabolism Electron transport thioredoxin-disulfide reductase (TIGR01292; EC 1.8.1.9; HMM-score: 14.1)
    Metabolism Amino acid biosynthesis Glutamate family glutamate synthase (NADPH), homotetrameric (TIGR01316; EC 1.4.1.13; HMM-score: 14)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Chlorophyll and bacteriochlorphyll geranylgeranyl reductase (TIGR02023; EC 1.3.1.-; HMM-score: 13.9)
    Metabolism Energy metabolism Anaerobic glycerol-3-phosphate dehydrogenase, anaerobic, B subunit (TIGR03378; EC 1.1.5.3; HMM-score: 13.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine thiazole biosynthesis enzyme (TIGR00292; HMM-score: 13.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02731; EC 1.14.99.-; HMM-score: 13.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family (TIGR01988; EC 1.14.13.-; HMM-score: 13.1)
    Metabolism Energy metabolism Amino acids and amines sarcosine oxidase, monomeric form (TIGR01377; HMM-score: 12.8)
    FAD dependent oxidoreductase TIGR03364 (TIGR03364; HMM-score: 12.7)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone 2-polyprenyl-6-methoxyphenol 4-hydroxylase (TIGR01984; EC 1.14.13.-; HMM-score: 12.2)
    Unknown function Enzymes of unknown specificity GMC family mycofactocin-associated oxidreductase (TIGR04542; EC 1.-.-.-; HMM-score: 12.1)
    lycopene cyclase family protein (TIGR01790; HMM-score: 11.7)
    Unknown function Enzymes of unknown specificity putative bacillithiol system oxidoreductase, YpdA family (TIGR04018; EC 1.8.-.-; HMM-score: 11.5)
    Metabolism Central intermediary metabolism Nitrogen metabolism nitrite reductase [NAD(P)H], large subunit (TIGR02374; EC 1.7.1.4; HMM-score: 11)
    Metabolism Amino acid biosynthesis Other pyrrolysine biosynthesis protein PylD (TIGR03911; HMM-score: 10.9)
    pyridine nucleotide-disulfide oxidoreductase family protein (TIGR03169; HMM-score: 10.8)
    Metabolism Energy metabolism Electron transport glutathione-disulfide reductase (TIGR01424; EC 1.8.1.7; HMM-score: 10.3)
    glutamate synthase, small subunit (TIGR01318; HMM-score: 10.1)
    Metabolism Energy metabolism Anaerobic glycerol-3-phosphate dehydrogenase, anaerobic, A subunit (TIGR03377; EC 1.1.5.3; HMM-score: 9.1)
  • ⊞TheSEED  :
    • 4,4'-diapolycopene oxidase
    • Phytoene desaturase, neurosporene or lycopene producing (EC 1.3.-.-)
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Carotenoids  4,4'-diapolycopene oxidase
    and 1 more
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Carotenoids  Phytoene desaturase, neurosporene or lycopene producing (EC 1.3.-.-)
  • ⊞PFAM:
    NADP_Rossmann (CL0063) Amino_oxidase; Flavin containing amine oxidoreductase (PF01593; HMM-score: 92.8)
    and 17 more
    NAD_binding_8; NAD(P)-binding Rossmann-like domain (PF13450; HMM-score: 54.5)
    DAO; FAD dependent oxidoreductase (PF01266; HMM-score: 47.5)
    Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 42.6)
    FAD_oxidored; FAD dependent oxidoreductase (PF12831; HMM-score: 42.5)
    HI0933_like; HI0933-like protein Rossmann domain (PF03486; HMM-score: 36.5)
    FAD_binding_2; FAD binding domain (PF00890; HMM-score: 32.7)
    Pyr_redox; Pyridine nucleotide-disulphide oxidoreductase (PF00070; HMM-score: 31.7)
    GIDA; Glucose inhibited division protein A (PF01134; HMM-score: 29.8)
    Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 17.9)
    FAD_binding_3; FAD binding domain (PF01494; HMM-score: 16.1)
    NAD_binding_9; FAD-NAD(P)-binding (PF13454; HMM-score: 14.3)
    sPC4_like (CL0609) T4_y05I_C; y05I-like putative transcription factor C-terminal domain (PF24448; HMM-score: 12.7)
    NADP_Rossmann (CL0063) Thi4; Thi4 family (PF01946; HMM-score: 12.5)
    3HCDH_N; 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain (PF02737; HMM-score: 12.3)
    no clan defined ADSL_C; Adenylosuccinate lyase C-terminus (PF10397; HMM-score: 12.3)
    NADP_Rossmann (CL0063) Trp_halogenase; Tryptophan halogenase (PF04820; HMM-score: 11.4)
    MCRA; MCRA family (PF06100; HMM-score: 10.8)

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

  • domains:
  • modifications:
  • cofactors: FAD
  • 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 Membrane
    • Cytoplasmic Score: 0.0781
    • Cytoplasmic Membrane Score: 0.9159
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0059
  • ⊞LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 0.67
    • Signal peptide possibility: -0.5
    • N-terminally Anchored Score: -1
    • Predicted Cleavage Site: No CleavageSite
  • ⊞SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.199482
    • TAT(Tat/SPI): 0.015876
    • LIPO(Sec/SPII): 0.05323
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTKHIIVIGGGLGGISAAIRMAQSGYSVSLYEQNNHIGGKVNRHESDGFGFDLGPSILTMPYIFEKLFEYSKKQMSDYVTIKRLPHQWRSFFPDGTTIDLYEGIKETGQHNAILSKQDIEELQNYLNYTRRIDRITEKGYFNYGLDTLSQIIKFHGPLNALINYDYVHTMQQAIDKRISNPYLRQMLGYFIKYVGSSSYDAPAVLSMLFHMQQEQGLWYVEGGIHHLANALEKLAREEGVTIHTGARVDNIKTYQRRVTGVRLDTGEFVKADYIISNMEVIPTYKYLIHLDTQRLNKLEREFEPASSGYVMHLGVACQYPQLAHHNFFFTENAYLNYQQVFHEKVLPDDPTIYLVNTNKTDHTQAPVGYENIKVLPHIPYIQDQPFTTEDYAKFRDKILDKLEKMGLTDLRKHIIYEDVWTPEDIEKNYRSNRGAIYGVVADKKKNKGFKFPKESQYFENLYFVGGSVNPGGGMPMVTLSGQQVADKINAREAKNRK

⊟Experimental data[edit | edit source]

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

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • ⊞regulator: SigB* (activation) regulon

⊟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. ↑ 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. ↑ Markus Bischoff, Paul Dunman, Jan Kormanec, Daphne Macapagal, Ellen Murphy, William Mounts, Brigitte Berger-Bächi, Steven Projan
    Microarray-based analysis of the Staphylococcus aureus sigmaB regulon.
    J Bacteriol: 2004, 186(13);4085-99
    [PubMed:15205410] [WorldCat.org] [DOI] (P p)
  5. ↑ Jan Pané-Farré, Beate Jonas, Konrad Förstner, Susanne Engelmann, Michael Hecker
    The sigmaB regulon in Staphylococcus aureus and its regulation.
    Int J Med Microbiol: 2006, 296(4-5);237-58
    [PubMed:16644280] [WorldCat.org] [DOI] (P p)

⊟Relevant publications[edit | edit source]

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