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m (Text replacement - "gene Genbank" to "gene RefSeq")
m (Text replacement - "* <aureodatabase>protein Genbank</aureodatabase> " to "")
 
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__TOC__
<protect>
<protect>
<aureodatabase>NCBI date</aureodatabase>
<aureodatabase>annotation</aureodatabase>


=Summary=
=Summary=


* <aureodatabase>organism</aureodatabase>
*<aureodatabase>organism</aureodatabase>
* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>pan locus</aureodatabase>
*<aureodatabase>pan locus</aureodatabase>
* <aureodatabase>gene symbol</aureodatabase>
*<aureodatabase>gene symbol</aureodatabase>
* <aureodatabase>pan gene symbol</aureodatabase>
*<aureodatabase>pan gene symbol</aureodatabase>
* <aureodatabase>gene synonyms</aureodatabase>
*<aureodatabase>gene synonyms</aureodatabase>
* <aureodatabase>product</aureodatabase>
*<aureodatabase>product</aureodatabase>
</protect>
</protect>


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==General==
==General==


* <aureodatabase>gene type</aureodatabase>
*<aureodatabase>gene type</aureodatabase>
* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>gene symbol</aureodatabase>
*<aureodatabase>gene symbol</aureodatabase>
* <aureodatabase>product</aureodatabase>
*<aureodatabase>product</aureodatabase>
* <aureodatabase>gene replicon</aureodatabase>
*<aureodatabase>gene replicon</aureodatabase>
* <aureodatabase>strand</aureodatabase>
*<aureodatabase>strand</aureodatabase>
* <aureodatabase>gene coordinates</aureodatabase>
*<aureodatabase>gene coordinates</aureodatabase>
* <aureodatabase>gene length</aureodatabase>
*<aureodatabase>gene length</aureodatabase>
* <aureodatabase>essential</aureodatabase>
*<aureodatabase>essential</aureodatabase>
*<aureodatabase>gene comment</aureodatabase>
</protect>
</protect>


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==Accession numbers==
==Accession numbers==


* <aureodatabase>gene GI</aureodatabase>
*<aureodatabase>gene location</aureodatabase>
* <aureodatabase>gene RefSeq</aureodatabase>
*<aureodatabase>gene BioCyc</aureodatabase>
*<aureodatabase>gene MicrobesOnline</aureodatabase>
</protect>
</protect>
   
   
<protect>  
<protect>
==Phenotype==
==Phenotype==
</protect>
</protect>
* Share your knowledge and add information here. [<span class="plainlinks">[http://www.protecs.uni-greifswald.de/aureowiki/index.php?title={{PAGENAMEE}}&action=edit&section=6 edit]</span>]
Share your knowledge and add information here. [<span class="plainlinks">[//aureowiki.med.uni-greifswald.de/index.php?title={{PAGENAMEE}}&veaction=edit&section=6 edit]</span>]


<protect>
<protect>
==DNA sequence==
==DNA sequence==


* <aureodatabase>gene sequence</aureodatabase>
*<aureodatabase>gene sequence</aureodatabase>
</protect>
</protect>


<protect>
<protect>
<aureodatabase>RNA regulated operons</aureodatabase>
</protect>


<protect>
=Protein=
=Protein=
<aureodatabase>protein 3D view</aureodatabase>
<aureodatabase>protein 3D view</aureodatabase>
==General==
==General==


* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>protein symbol</aureodatabase>
*<aureodatabase>protein symbol</aureodatabase>
* <aureodatabase>protein description</aureodatabase>
*<aureodatabase>protein description</aureodatabase>
* <aureodatabase>protein length</aureodatabase>
*<aureodatabase>protein length</aureodatabase>
* <aureodatabase>theoretical pI</aureodatabase>
*<aureodatabase>theoretical pI</aureodatabase>
* <aureodatabase>theoretical MW</aureodatabase>
*<aureodatabase>theoretical MW</aureodatabase>
* <aureodatabase>GRAVY</aureodatabase>
*<aureodatabase>GRAVY</aureodatabase>
</protect>
</protect>


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==Function==
==Function==


* <aureodatabase>protein reaction</aureodatabase>
*<aureodatabase>protein reaction</aureodatabase>
* <aureodatabase>protein TIGRFAM</aureodatabase>
*<aureodatabase>protein TIGRFAM</aureodatabase>
* <aureodatabase>protein TheSeed</aureodatabase>
*<aureodatabase>protein TheSeed</aureodatabase>
* <aureodatabase>protein PFAM</aureodatabase>
*<aureodatabase>protein PFAM</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Structure, modifications & interactions==
==Structure, modifications & cofactors==


* <aureodatabase>protein domains</aureodatabase>
*<aureodatabase>protein domains</aureodatabase>
* <aureodatabase>protein modifications</aureodatabase>
*<aureodatabase>protein modifications</aureodatabase>
* <aureodatabase>protein cofactors</aureodatabase>
*<aureodatabase>protein cofactors</aureodatabase>
* <aureodatabase>protein effectors</aureodatabase>
*<aureodatabase>protein effectors</aureodatabase>
* <aureodatabase>protein partners</aureodatabase>
*<aureodatabase>protein regulated operons</aureodatabase>
</protect>
</protect>


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==Localization==
==Localization==


* <aureodatabase>protein Psortb</aureodatabase>
*<aureodatabase>protein Psortb</aureodatabase>
* <aureodatabase>protein LocateP</aureodatabase>
*<aureodatabase>protein LocateP</aureodatabase>
* <aureodatabase>protein SignalP</aureodatabase>
*<aureodatabase>protein SignalP</aureodatabase>
* <aureodatabase>protein TMHMM</aureodatabase>
*<aureodatabase>protein TMHMM</aureodatabase>
</protect>
</protect>


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==Accession numbers==
==Accession numbers==


* <aureodatabase>protein GI</aureodatabase>
*<aureodatabase>protein GI</aureodatabase>
* <aureodatabase>protein UniProt</aureodatabase>
*<aureodatabase>protein RefSeq</aureodatabase>
* <aureodatabase>protein Genbank</aureodatabase>
*<aureodatabase>protein UniProt</aureodatabase>
* <aureodatabase>protein RefSeq</aureodatabase>
</protect>
</protect>


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==Protein sequence==
==Protein sequence==


* <aureodatabase>protein sequence</aureodatabase>
*<aureodatabase>protein sequence</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Peptides==
==Experimental data==


* <aureodatabase>protein validated peptides</aureodatabase>
*<aureodatabase>protein validated peptides</aureodatabase>
*<aureodatabase>protein validated localization</aureodatabase>
*<aureodatabase>protein validated quantitative data</aureodatabase>
*<aureodatabase>protein partners</aureodatabase>
</protect>
</protect>


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==Operon==
==Operon==


* <aureodatabase>operons</aureodatabase>
*<aureodatabase>operons</aureodatabase>
</protect>
</protect>


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==Regulation==
==Regulation==


* <aureodatabase>sigma factors</aureodatabase>
*<aureodatabase>regulators</aureodatabase>
* <aureodatabase>regulators</aureodatabase>
</protect>
</protect>


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==Transcription pattern==
==Transcription pattern==


* <aureodatabase>expression browser</aureodatabase>
*<aureodatabase>expression browser</aureodatabase>
</protect>
</protect>


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==Protein synthesis (provided by Aureolib)==
==Protein synthesis (provided by Aureolib)==


* <aureodatabase>protein synthesis Aureolib</aureodatabase>
*<aureodatabase>protein synthesis Aureolib</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Stability==
==Protein stability==


* <aureodatabase>protein half-life</aureodatabase>
*<aureodatabase>protein half-life</aureodatabase>
</protect>
</protect>


Latest revision as of 09:59, 11 March 2016

NCBI: 02-MAR-2017

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA_RS09325 [old locus tag: SA1650 ]
  • pan locus tag?: SAUPAN004756000
  • symbol: SA_RS09325
  • 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: SA_RS09325 [old locus tag: SA1650 ]
  • symbol: SA_RS09325
  • product: protoporphyrinogen oxidase
  • replicon: chromosome
  • strand: -
  • coordinates: 1883870..1885270
  • length: 1401
  • essential: no DEG other strains

⊟Accession numbers[edit | edit source]

  • Location: NC_002745 (1883870..1885270) NCBI
  • BioCyc: G1G21-1878 BioCyc
  • MicrobesOnline: see SA1650

⊟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
    TCGCCACTTGGTAAATTAAGAGCAGGATTAGATTTAATCAAAAAGCCTATACAAATGCAA
    GATGGTGACATTTCTGTTGGTGCATTTTTCAGAGCAAGATTAGGTAATGAGGTACTTGAG
    AACTTAATTGAGCCTTTAATGGGTGGTATTTATGGTACCGATATTGATAAATTAAGTTTG
    ATGAGTACGTTTCCTAATTTTAAAGAAAAAGAAGAGGCATTCGGAAGTCTGATAAAAGGT
    ATGAAGGATGAGAAAAATAAGCGTCTGAAACAAAGACAATTATATCCTGGCGCACCAAAA
    GGACAATTCAAACAATTTAAGCATGGTTTAAGCTCATTTATTGAAGCATTAGAACAAGAT
    GTGAAAAATAAAGGTGTGACAATACGCTACAATACGTCAGTGGATGATATTATTACATCT
    CAAAAGCAATATAAAATTGTTTACAGTAATCAACAAGAAGATGTATTCGATGGGGTATTA
    GTGACAACACCGCATCAAGTCTTTTTGAATTGGTTCGGACAAGATCCAGCATTTGATTAC
    TTTAAAACGATGGATAGTACGACTGTTGCAACTGTTGTATTGGCATTTGATGAAAAAGAC
    ATTGAAAATACTTATGATGGTACTGGCTTCGTGATTGCGAGAACGAGTGATACAGACATT
    ACCGCATGTACTTGGACATCGAAAAAATGGCCATTTACTACACCAGAAGGTAAGGTTTTG
    ATTCGTGCGTATGTAGGTAAACCAGGTGATACTGTGGTTGATGATCATACAGATAATGAA
    TTAGTATCGATTGTACGTAGAGATTTAAGTCAAATGATGACATTTAAAGGTGATCCTGAA
    TTTACAATTGTCAATCGTTTGCCGAAAAGTATGCCACAGTACCATGTCGGTCATATTCAA
    CAAATTAGACAGATTCAAGCACATATTAAACAAACATATCCACGACTTAGAGTAACTGGT
    GCATCTTTTGAAGCGGTTGGACTACCTGATTGTATTACACAAGGTAAAGTTGCTGCTGAA
    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: SA_RS09325 [old locus tag: SA1650 ]
  • symbol: SA_RS09325
  • description: protoporphyrinogen oxidase
  • length: 466
  • theoretical pI: 7.14632
  • theoretical MW: 51944.1
  • GRAVY: -0.298498

⊟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: 382.9)
    and 25 more
    squalene-associated FAD-dependent desaturase (TIGR03467; HMM-score: 60.3)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02734; EC 1.14.99.-; HMM-score: 44.1)
    9,9'-di-cis-zeta-carotene desaturase (TIGR02732; EC 1.3.5.6; HMM-score: 37.8)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other C-3',4' desaturase CrtD (TIGR02733; EC 1.3.99.-; HMM-score: 30.6)
    Unknown function Enzymes of unknown specificity flavoprotein, HI0933 family (TIGR00275; HMM-score: 30.4)
    putative selenate reductase, YgfK subunit (TIGR03315; HMM-score: 22.1)
    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: 21.8)
    putative aminophosphonate oxidoreductase (TIGR03329; HMM-score: 21.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02731; EC 1.14.99.-; HMM-score: 19.8)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine glycine oxidase ThiO (TIGR02352; EC 1.4.3.19; HMM-score: 19.4)
    Metabolism Amino acid biosynthesis Glutamate family glutamate synthase (NADPH), homotetrameric (TIGR01316; EC 1.4.1.13; HMM-score: 16.8)
    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: 15.5)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other carotene isomerase (TIGR02730; EC 5.-.-.-; HMM-score: 15.4)
    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: 15)
    Metabolism Energy metabolism Electron transport flavocytochrome c (TIGR01813; HMM-score: 14.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone 2-polyprenyl-6-methoxyphenol 4-hydroxylase (TIGR01984; EC 1.14.13.-; HMM-score: 14.1)
    dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 13.8)
    flavin-dependent oxidoreductase, MSMEG_0569 family (TIGR04046; HMM-score: 13)
    FAD dependent oxidoreductase TIGR03364 (TIGR03364; HMM-score: 12.9)
    Cellular processes Cellular processes Detoxification CoA-disulfide reductase (TIGR03385; EC 1.8.1.14; HMM-score: 12.4)
    Metabolism Energy metabolism TCA cycle malate dehydrogenase (acceptor) (TIGR01320; EC 1.1.5.4; HMM-score: 11.4)
    lycopene cyclase (TIGR01789; HMM-score: 11.2)
    Metabolism Energy metabolism Electron transport thioredoxin-disulfide reductase (TIGR01292; EC 1.8.1.9; HMM-score: 11.1)
    mycofactocin system FadH/OYE family oxidoreductase 2 (TIGR03997; EC 1.-.-.-; HMM-score: 11.1)
  • TheSEED: see SA1650
  • PFAM:
    NADP_Rossmann (CL0063) Amino_oxidase; Flavin containing amine oxidoreductase (PF01593; HMM-score: 205.3)
    and 17 more
    NAD_binding_8; NAD(P)-binding Rossmann-like domain (PF13450; HMM-score: 55.5)
    DAO; FAD dependent oxidoreductase (PF01266; HMM-score: 43.4)
    Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 31.5)
    MCRA; MCRA family (PF06100; HMM-score: 28.6)
    Pyr_redox; Pyridine nucleotide-disulphide oxidoreductase (PF00070; HMM-score: 28.3)
    NAD_binding_9; FAD-NAD(P)-binding (PF13454; HMM-score: 27.1)
    HI0933_like; HI0933-like protein (PF03486; HMM-score: 26.5)
    Thi4; Thi4 family (PF01946; HMM-score: 25.9)
    Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 16.9)
    FAD_binding_2; FAD binding domain (PF00890; HMM-score: 14.2)
    Mqo; Malate:quinone oxidoreductase (Mqo) (PF06039; HMM-score: 13.5)
    FAD_binding_3; FAD binding domain (PF01494; HMM-score: 13.2)
    FMO-like; Flavin-binding monooxygenase-like (PF00743; HMM-score: 12.8)
    Glu_dehyd_C; Glucose dehydrogenase C-terminus (PF16912; HMM-score: 12.6)
    ApbA; Ketopantoate reductase PanE/ApbA (PF02558; HMM-score: 12.2)
    Prenylcys_lyase; Prenylcysteine lyase (PF07156; 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
  • LocateP:
  • 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]

  • MTKSVAIIGAGITGLSSAYFLKQQDPNIDVTIFEASNRPGGKIQSYRKDGYMIELGPESYLGRKTIMTELAKDIGLEQDIVTNTTGQSYIFAKNKLYPIPGGSIMGIPTDIKPFVTTKLISPLGKLRAGLDLIKKPIQMQDGDISVGAFFRARLGNEVLENLIEPLMGGIYGTDIDKLSLMSTFPNFKEKEEAFGSLIKGMKDEKNKRLKQRQLYPGAPKGQFKQFKHGLSSFIEALEQDVKNKGVTIRYNTSVDDIITSQKQYKIVYSNQQEDVFDGVLVTTPHQVFLNWFGQDPAFDYFKTMDSTTVATVVLAFDEKDIENTYDGTGFVIARTSDTDITACTWTSKKWPFTTPEGKVLIRAYVGKPGDTVVDDHTDNELVSIVRRDLSQMMTFKGDPEFTIVNRLPKSMPQYHVGHIQQIRQIQAHIKQTYPRLRVTGASFEAVGLPDCITQGKVAAEEVIAEL

⊟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]

⊟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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