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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1723 [new locus tag: NWMN_RS09715 ]
  • pan locus tag?: SAUPAN004756000
  • symbol: hemY
  • pan gene symbol?: hemY
  • synonym:
  • product: protoporphyrinogen oxidase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_1723 [new locus tag: NWMN_RS09715 ]
  • symbol: hemY
  • product: protoporphyrinogen oxidase
  • replicon: chromosome
  • strand: -
  • coordinates: 1923252..1924652
  • length: 1401
  • 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
    GTGACTAAATCAGTGGCTATTATAGGAGCGGGGATAACAGGTTTATCAAGTGCATATTTT
    TTAAAACAGCAAGATCCTAATATTGATGTAACCATCTTTGAAGCATCGAATCGTCCGGGG
    GGAAAGATTCAATCGTATCGTAAAGATGGTTATATGATTGAACTAGGGCCTGAATCTTAT
    TTAGGTAGAAAAACGATTATGACAGAATTAGCGAAAGATATTGGATTAGAACAAGATATT
    GTTACAAATACGACTGGACAATCATATATTTTTGCGAAAAATAAATTATATCCGATTCCA
    GGTGGTTCAATTATGGGTATTCCAACAGATATTAAACCATTTGTTACTACAAAATTAATA
    TCGCCACTTGGTAAATTAAGAGCAGGGTTTGATTTATTAAAAAAACCTACTCAAATGCAG
    GATGGTGACATTTCTGTTGGTGCATTTTTCAGAGCAAGATTAGGTAATGAGGTACTTGAG
    AATTTAATAGAGCCTTTAATGGGTGGTATTTATGGTACCGATATTGATAAATTAAGTTTG
    ATGAGTACGTTTCCTAATTTTAAAGAAAAAGAAGAGGCATTCGGAAGTCTGATAAAAGGT
    ATGAAGGATGAGAAAAATAAGCGTCTGAAACAAAGACAATTATATCCTGGCGCACCGAAA
    GGACAATTCAAACAATTTAAGCATGGTTTAAGCTCATTTATTGAAGCATTAGAACAAGAT
    GTTAAAAATAAAGGTGTGACAATACGCTACAATACGTCAGTGGATGATATAATTACATCT
    CAAAAACAATATAAAATTGTTTACAATGATCAACTAGAAGAAGTGTATGATGGCGTATTA
    GTAACGACACCACATCAAGTGTTTTTAAATTGGTTCGGACAAGATCCAGCATTTGATTAC
    TTTAAAACGATGGATAGTACGACTGTTGCAACTGTTGTATTGGCATTTGATGAAAAAGAC
    ATTGAAAATACCCATGATGGTACTGGCTTCGTAATTGCGAGAACGAGTGATACAGACATT
    ACCGCATGTACTTGGACATCGAAAAAATGGCCATTTACTACACCGGAAGGTAAGGTTTTG
    ATTCGTGCGTATGTAGGTAAACCAGGTGATACTGTGGTTGATGATCATACAGATAATGAA
    TTAGTATCGATTGTACGTAGAGATTTAAGTCAAATGATGACATTTAAAGGTGATCCTGAA
    TTTACAATTGTCAATCGTTTGCCGAAAAGTATGCCACAGTACCATGTCGGTCATATTCAA
    CAAATTAGACAGATTCAAGCACATATTAAACAAACATATCCACGACTTAGAGTAACTGGT
    GCATCTTTTGAAGCGTTGGGACTACCTGATTGTATTACGCAAAGTAAAGTTGCTGCTGAA
    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 | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_1723 [new locus tag: NWMN_RS09715 ]
  • symbol: HemY
  • description: protoporphyrinogen oxidase
  • length: 466
  • theoretical pI: 6.89499
  • theoretical MW: 52027.2
  • GRAVY: -0.318026

⊟Function[edit | edit source]

  • reaction:
    EC 1.3.3.4?  ExPASy
    Protoporphyrinogen oxidase Protoporphyrinogen-IX + 3 O2 = protoporphyrin-IX + 3 H2O2
  • TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin protoporphyrinogen oxidase (TIGR00562; EC 1.3.3.4; HMM-score: 381.8)
    and 23 more
    squalene-associated FAD-dependent desaturase (TIGR03467; HMM-score: 58.5)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02734; EC 1.14.99.-; HMM-score: 43.9)
    9,9'-di-cis-zeta-carotene desaturase (TIGR02732; EC 1.3.5.6; HMM-score: 35.9)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other C-3',4' desaturase CrtD (TIGR02733; EC 1.3.99.-; HMM-score: 29.9)
    Unknown function Enzymes of unknown specificity flavoprotein, 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)
    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: 19.8)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02731; EC 1.14.99.-; HMM-score: 19.7)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine glycine oxidase ThiO (TIGR02352; EC 1.4.3.19; HMM-score: 17.5)
    Metabolism Amino acid biosynthesis Glutamate family glutamate synthase (NADPH), homotetrameric (TIGR01316; EC 1.4.1.13; HMM-score: 16.9)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine thiazole biosynthesis enzyme (TIGR00292; HMM-score: 16.6)
    glutamate synthase, NADH/NADPH, small subunit (TIGR01317; EC 1.4.1.-; HMM-score: 16.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other carotene isomerase (TIGR02730; EC 5.-.-.-; HMM-score: 15.3)
    dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 14.3)
    Metabolism Energy metabolism Electron transport flavocytochrome c (TIGR01813; HMM-score: 14.2)
    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: 14.1)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone 2-polyprenyl-6-methoxyphenol 4-hydroxylase (TIGR01984; EC 1.14.13.-; HMM-score: 13.5)
    FAD dependent oxidoreductase TIGR03364 (TIGR03364; HMM-score: 12.8)
    flavin-dependent oxidoreductase, MSMEG_0569 family (TIGR04046; HMM-score: 12.5)
    Cellular processes Cellular processes Detoxification CoA-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: 10.9)
  • TheSEED  :
    • Protoporphyrinogen IX oxidase, aerobic, HemY (EC 1.3.3.4)
    Cofactors, Vitamins, Prosthetic Groups, Pigments Tetrapyrroles CPO analysis  Protoporphyrinogen IX oxidase, aerobic, HemY (EC 1.3.3.4)
  • PFAM:
    NADP_Rossmann (CL0063) Amino_oxidase; Flavin containing amine oxidoreductase (PF01593; HMM-score: 194.1)
    and 16 more
    NAD_binding_8; NAD(P)-binding Rossmann-like domain (PF13450; HMM-score: 54.6)
    DAO; FAD dependent oxidoreductase (PF01266; HMM-score: 43.2)
    Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 33.3)
    MCRA; MCRA family (PF06100; HMM-score: 29.5)
    Pyr_redox; Pyridine nucleotide-disulphide oxidoreductase (PF00070; HMM-score: 27.5)
    HI0933_like; HI0933-like protein Rossmann domain (PF03486; HMM-score: 26.3)
    Thi4; Thi4 family (PF01946; HMM-score: 25.5)
    NAD_binding_9; FAD-NAD(P)-binding (PF13454; HMM-score: 24.8)
    MurF-HprK_N (CL0365) MurD-like_N; Mur ligase MurD-like, N-terminal domain (PF21799; HMM-score: 18.5)
    NADP_Rossmann (CL0063) Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 14.7)
    Mqo; Malate:quinone oxidoreductase (Mqo) (PF06039; HMM-score: 13.6)
    no clan defined DUF6261; Family of unknown function (DUF6261) (PF19775; HMM-score: 13.4)
    NADP_Rossmann (CL0063) FAD_binding_2; FAD binding domain (PF00890; HMM-score: 13.3)
    Glu_dehyd_C; Glucose dehydrogenase C-terminus (PF16912; HMM-score: 12.1)
    FAD_binding_3; FAD binding domain (PF01494; HMM-score: 11.8)
    Lycopene_cycl; Lycopene cyclase protein (PF05834; HMM-score: 11.7)

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

  • domains:
  • modifications:
  • cofactors: FAD
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.89
    • Cytoplasmic Membrane Score: 0.09
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.6584
    • Cytoplasmic Membrane Score: 0.3316
    • Cell wall & surface Score: 0.0012
    • Extracellular Score: 0.0088
  • 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
    • SP(Sec/SPI): 0.117609
    • TAT(Tat/SPI): 0.003309
    • LIPO(Sec/SPII): 0.047559
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTKSVAIIGAGITGLSSAYFLKQQDPNIDVTIFEASNRPGGKIQSYRKDGYMIELGPESYLGRKTIMTELAKDIGLEQDIVTNTTGQSYIFAKNKLYPIPGGSIMGIPTDIKPFVTTKLISPLGKLRAGFDLLKKPTQMQDGDISVGAFFRARLGNEVLENLIEPLMGGIYGTDIDKLSLMSTFPNFKEKEEAFGSLIKGMKDEKNKRLKQRQLYPGAPKGQFKQFKHGLSSFIEALEQDVKNKGVTIRYNTSVDDIITSQKQYKIVYNDQLEEVYDGVLVTTPHQVFLNWFGQDPAFDYFKTMDSTTVATVVLAFDEKDIENTHDGTGFVIARTSDTDITACTWTSKKWPFTTPEGKVLIRAYVGKPGDTVVDDHTDNELVSIVRRDLSQMMTFKGDPEFTIVNRLPKSMPQYHVGHIQQIRQIQAHIKQTYPRLRVTGASFEALGLPDCITQSKVAAEEVIAEL

⊟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:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: PerR* (repression) regulon
    PerR*(TF)important in Oxidative stress response; 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]

⊟Relevant publications[edit | edit source]

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