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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01960
  • pan locus tag?: SAUPAN004756000
  • symbol: SAOUHSC_01960
  • pan gene symbol?: hemY
  • synonym:
  • product: protoporphyrinogen oxidase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_01960
  • symbol: SAOUHSC_01960
  • product: protoporphyrinogen oxidase
  • replicon: chromosome
  • strand: -
  • coordinates: 1866403..1867803
  • length: 1401
  • essential: no DEG 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
    1081
    1141
    1201
    1261
    1321
    1381
    GTGACTAAATCAGTGGCTATTATAGGAGCGGGGATAACAGGTTTATCAAGTGCATATTTT
    TTAAAACAGCAAGATCCTAATATTGATGTAACCATCTTTGAAGCATCGAATCGTCCGGGG
    GGAAAGATTCAATCGTATCGTAAAGATGGTTATATGATTGAACTAGGGCCTGAATCTTAT
    TTAGGTAGAAAAACGATTATGACAGAATTAGCGAAAGATATTGGATTAGAACAAGATATT
    GTTACAAATACGACTGGACAATCATATATTTTTGCGAAAAATAAATTATATCCGATTCCA
    GGTGGTTCAATTATGGGTATTCCAACAGATATTAAACCATTTGTTACTACAAAATTAATA
    TCGCCACTTGGTAAATTAAGAGCAGGGTTTGATTTATTAAAAAAACCTACTCAAATGCAG
    GATGGTGACATTTCTGTTGGTGCATTTTTCAGAGCAAGATTAGGTAATGAGGTACTTGAG
    AATTTAATAGAGCCTTTAATGGGTGGTATTTATGGTACCGATATTGATAAATTAAGTTTG
    ATGAGTACGTTTCCTAATTTTAAAGAAAAAGAAGAGGCATTCGGAAGTCTGATAAAAGGT
    ATGAAGGATGAGAAAAATAAGCGTCTGAAACAAAGACAATTATATCCTGGCGCACCGAAA
    GGACAATTCAAACAATTTAAGCATGGTTTAAGCTCATTTATTGAAGCATTAGAACAAGAT
    GTTAAAAATAAAGGTGTGACAATACGCTACAATACGTCAGTGGATGATATAATTACATCT
    CAAAAACAATATAAAATTGTTTACAATGATCAACTAGAAGAAGTGTATGATGGCGTATTA
    GTAACGACACCACATCAAGTGTTTTTAAATTGGTTCGGACAAGATCCAGCATTTGATTAC
    TTTAAAACGATGGATAGTACGACTGTTGCAACTGTTGTATTGGCATTTGATGAAAAAGAC
    ATTGAAAATACCCATGATGGTACTGGCTTCGTAATTGCGAGAACGAGTGATACAGACATT
    ACCGCATGTACTTGGACATCGAAAAAATGGCCATTTACTACACCGGAAGGTAAGGTTTTG
    ATTCGTGCGTATGTAGGTAAACCAGGTGATACTGTGGTTGATGATCATACAGATAATGAA
    TTAGTATCGATTGTACGTAGAGATTTAAGTCAAATGATGACATTTAAAGGTGATCCTGAA
    TTTACAATTGTCAATCGTTTGCCGAAAAGTATGCCACAGTACCATGTCGGTCATATTCAA
    CAAATTAGACAGATTCAAGCACATATTAAACAAACATATCCACGACTTAGAGTAACTGGT
    GCATCTTTTGAAGCGGTTGGACTACCTGATTGTATTACGCAAGGTAAAGTTGCTGCTGAA
    GAAGTAATCGCAGAGTTGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1401

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_01960
  • symbol: SAOUHSC_01960
  • description: protoporphyrinogen oxidase
  • length: 466
  • theoretical pI: 6.89499
  • theoretical MW: 51983.1
  • GRAVY: -0.316309

Function[edit source | edit]

  • reaction:
    EC 1.3.3.4?  ExPASy
    Protoporphyrinogen oxidaseProtoporphyrinogen-IX + 3 O2 = protoporphyrin-IX + 3 H2O2
  • TIGRFAM:
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersHeme, porphyrin, and cobalaminprotoporphyrinogen oxidase (TIGR00562; EC 1.3.3.4; HMM-score: 385.2)
    and 23 more
    squalene-associated FAD-dependent desaturase (TIGR03467; HMM-score: 58.5)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOtherphytoene desaturase (TIGR02734; EC 1.14.99.-; HMM-score: 44.2)
    9,9'-di-cis-zeta-carotene desaturase (TIGR02732; EC 1.3.5.6; HMM-score: 35.9)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOtherC-3',4' desaturase CrtD (TIGR02733; EC 1.3.99.-; HMM-score: 29.9)
    Unknown functionEnzymes of unknown specificityflavoprotein, HI0933 family (TIGR00275; HMM-score: 29.3)
    putative selenate reductase, YgfK subunit (TIGR03315; HMM-score: 22.1)
    putative aminophosphonate oxidoreductase (TIGR03329; HMM-score: 21.4)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOtherphytoene desaturase (TIGR02731; EC 1.14.99.-; HMM-score: 19.8)
    Genetic information processingProtein synthesistRNA and rRNA base modificationtRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain (TIGR03197; HMM-score: 19.8)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersThiamineglycine oxidase ThiO (TIGR02352; EC 1.4.3.19; HMM-score: 17.5)
    MetabolismAmino acid biosynthesisGlutamate familyglutamate synthase (NADPH), homotetrameric (TIGR01316; EC 1.4.1.13; HMM-score: 16.9)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersThiaminethiazole biosynthesis enzyme (TIGR00292; HMM-score: 16.6)
    glutamate synthase, NADH/NADPH, small subunit (TIGR01317; EC 1.4.1.-; HMM-score: 16.6)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOthercarotene isomerase (TIGR02730; EC 5.-.-.-; HMM-score: 15.3)
    dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 14.3)
    MetabolismEnergy metabolismElectron transportflavocytochrome c (TIGR01813; HMM-score: 14.2)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersMenaquinone and ubiquinoneubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family (TIGR01988; EC 1.14.13.-; HMM-score: 14.1)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersMenaquinone and ubiquinone2-polyprenyl-6-methoxyphenol 4-hydroxylase (TIGR01984; EC 1.14.13.-; HMM-score: 13.4)
    FAD dependent oxidoreductase TIGR03364 (TIGR03364; HMM-score: 12.8)
    flavin-dependent oxidoreductase, MSMEG_0569 family (TIGR04046; HMM-score: 12.5)
    Cellular processesCellular processesDetoxificationCoA-disulfide reductase (TIGR03385; EC 1.8.1.14; HMM-score: 12.1)
    lycopene cyclase (TIGR01789; HMM-score: 11.2)
    mycofactocin system FadH/OYE family oxidoreductase 2 (TIGR03997; EC 1.-.-.-; HMM-score: 11)
  • TheSEED:  
    Cofactors, Vitamins, Prosthetic Groups, PigmentsTetrapyrrolesCPO analysis Protoporphyrinogen IX oxidase, aerobic, HemY (EC 1.3.3.4) 
  • PFAM:
    NADP_Rossmann (CL0063) Amino_oxidase; Flavin containing amine oxidoreductase (PF01593; HMM-score: 205.8)
    and 14 more
    NAD_binding_8; NAD(P)-binding Rossmann-like domain (PF13450; HMM-score: 55.4)
    DAO; FAD dependent oxidoreductase (PF01266; HMM-score: 43.8)
    Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 34)
    MCRA; MCRA family (PF06100; HMM-score: 28.7)
    Pyr_redox; Pyridine nucleotide-disulphide oxidoreductase (PF00070; HMM-score: 28.4)
    Thi4; Thi4 family (PF01946; HMM-score: 25.8)
    NAD_binding_9; FAD-NAD(P)-binding (PF13454; HMM-score: 25.8)
    HI0933_like; HI0933-like protein (PF03486; HMM-score: 25.1)
    Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 15.7)
    FAD_binding_2; FAD binding domain (PF00890; HMM-score: 14)
    FAD_binding_3; FAD binding domain (PF01494; HMM-score: 13.2)
    Mqo; Malate:quinone oxidoreductase (Mqo) (PF06039; HMM-score: 12.9)
    Glu_dehyd_C; Glucose dehydrogenase C-terminus (PF16912; HMM-score: 12.5)
    Lycopene_cycl; Lycopene cyclase protein (PF05834; HMM-score: 12)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors: FAD
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.89
    • Cytoplasmic Membrane Score: 0.09
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular Possibility: 0.83
    • Signal Peptide Possibility: -0.5
    • N-terminally Anchored Score: -1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • Ymax: 0.185
    • Ymax_pos: 24
    • Cmax: 0.127
    • Cmax_pos: 19
    • Smax: 0.463
    • Smax_pos: 20
    • Smean: 0.251
    • D: 0.211
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MTKSVAIIGAGITGLSSAYFLKQQDPNIDVTIFEASNRPGGKIQSYRKDGYMIELGPESYLGRKTIMTELAKDIGLEQDIVTNTTGQSYIFAKNKLYPIPGGSIMGIPTDIKPFVTTKLISPLGKLRAGFDLLKKPTQMQDGDISVGAFFRARLGNEVLENLIEPLMGGIYGTDIDKLSLMSTFPNFKEKEEAFGSLIKGMKDEKNKRLKQRQLYPGAPKGQFKQFKHGLSSFIEALEQDVKNKGVTIRYNTSVDDIITSQKQYKIVYNDQLEEVYDGVLVTTPHQVFLNWFGQDPAFDYFKTMDSTTVATVVLAFDEKDIENTHDGTGFVIARTSDTDITACTWTSKKWPFTTPEGKVLIRAYVGKPGDTVVDDHTDNELVSIVRRDLSQMMTFKGDPEFTIVNRLPKSMPQYHVGHIQQIRQIQAHIKQTYPRLRVTGASFEAVGLPDCITQGKVAAEEVIAEL

Experimental data[edit source | edit]

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: no data available

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. 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)
  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. 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)

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