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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL0931 [new locus tag: SACOL_RS04775 ]
  • pan locus tag?: SAUPAN003027000
  • symbol: SACOL0931
  • pan gene symbol?: nagD
  • synonym:
  • product: HAD superfamily hydrolase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL0931 [new locus tag: SACOL_RS04775 ]
  • symbol: SACOL0931
  • product: HAD superfamily hydrolase
  • replicon: chromosome
  • strand: +
  • coordinates: 935535..936314
  • length: 780
  • 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
    ATGAAACAGTATAAAGCGTATTTAATCGATTTAGATGGCACAATGTATATGGGAACAGAT
    GAGATTGATGGAGCAAAACAATTCATCGATTATTTAAATGTAAAAGGCATTCCTCATTTA
    TACGTAACTAATAATTCAACAAAAACACCTGAGCAAGTAACTGAAAAATTACGTGAAATG
    CACATTGATGCTAAACCAGAAGAGGTTGTAACGTCAGCGTTAGCCACTGCTGATTATATT
    TCAGAACAATCACCAGGAGCATCAGTATATATGTTAGGTGGGAGTGGTTTAAATACTGCG
    TTAACCGAAGCGGGACTTGTCATTAAAAATGACGAGCATGTTGATTATGTAGTTATTGGA
    CTTGACGAACAAGTTACATATGAAAAGCTTGCGATTGCAACGTTAGGTGTAAGAAATGGT
    GCAACATTTATTTCTACAAATCCTGATGTATCAATTCCTAAAGAGCGTGGTTTATTACCT
    GGTAATGGTGCTATTACAAGTGTTGTAAGTGTATCGACAGGTGTATCGCCACAATTTATT
    GGTAAACCAGAACCGATTATTATGGTTAAAGCATTAGAAATTTTAGGATTAGATAAATCC
    GAAGTTGCTATGGTAGGCGATTTGTACGATACCGATATTATGTCTGGTATTAACGTAGGT
    ATGGATACGATTCATGTACAAACAGGTGTATCTACGTTAGAAGATGTGCAAAATAAAAAT
    GTGCCACCAACGTATTCTTTTAAAGATTTAAATGAAGCAATAGCTGAATTAGAAAAATAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL0931 [new locus tag: SACOL_RS04775 ]
  • symbol: SACOL0931
  • description: HAD superfamily hydrolase
  • length: 259
  • theoretical pI: 4.22967
  • theoretical MW: 27945.5
  • GRAVY: -0.0791506

⊟Function[edit | edit source]

  • reaction:
    EC 3.1.3.-?  ExPASy
  • TIGRFAM:
    Unknown function Enzymes of unknown specificity HAD hydrolase, TIGR01457 family (TIGR01457; HMM-score: 328.9)
    and 21 more
    phosphoglycolate/pyridoxal phosphate phosphatase family (TIGR01452; EC 3.1.3.18; HMM-score: 145.3)
    Unknown function Enzymes of unknown specificity HAD hydrolase, family IIA (TIGR01460; HMM-score: 133)
    Unknown function Enzymes of unknown specificity HAD hydrolase, TIGR01458 family (TIGR01458; HMM-score: 75.7)
    HAD hydrolase, TIGR01459 family (TIGR01459; HMM-score: 59.6)
    HAD hydrolase, TIGR02253 family (TIGR02253; HMM-score: 40.9)
    noncanonical pyrimidine nucleotidase, YjjG family (TIGR02254; EC 3.1.3.5; HMM-score: 36.5)
    HAD phosphatase, family IIIA (TIGR01668; EC 3.1.3.-; HMM-score: 31.4)
    Unknown function Enzymes of unknown specificity HAD hydrolase, family IIIA (TIGR01662; HMM-score: 27.2)
    HAD hydrolase, TIGR01456 family (TIGR01456; HMM-score: 21.6)
    histidinol-phosphate phosphatase domain (TIGR01656; HMM-score: 21.5)
    HAD hydrolase, REG-2-like, family IA (TIGR02252; HMM-score: 19.8)
    AHBA synthesis associated protein (TIGR01454; HMM-score: 19.5)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Pyridine nucleotides 5'-nucleotidase, lipoprotein e(P4) family (TIGR01533; HMM-score: 19.3)
    Metabolism Transport and binding proteins Other 5'-nucleotidase, lipoprotein e(P4) family (TIGR01533; HMM-score: 19.3)
    pyrimidine 5'-nucleotidase (TIGR01993; EC 3.1.3.5; HMM-score: 17.4)
    Unknown function Enzymes of unknown specificity HAD hydrolase, family IA, variant 1 (TIGR01549; HMM-score: 16.5)
    phosphoglycolate phosphatase, TA0175-type (TIGR01487; EC 3.1.3.18; HMM-score: 15.9)
    Metabolism Energy metabolism Sugars phosphoglycolate phosphatase, bacterial (TIGR01449; EC 3.1.3.18; HMM-score: 15)
    Unknown function Enzymes of unknown specificity HAD hydrolase, family IA, variant 3 (TIGR01509; HMM-score: 14.2)
    HAD hydrolase, TIGR01548 family (TIGR01548; HMM-score: 12.4)
    Unknown function General mannosyl-3-phosphoglycerate phosphatase homolog (TIGR02463; EC 3.1.3.-; HMM-score: 12)
  • TheSEED  :
    • Hypothetical NagD-like phosphatase
  • PFAM:
    HAD (CL0137) Hydrolase_6; haloacid dehalogenase-like hydrolase (PF13344; HMM-score: 87.9)
    and 4 more
    Hydrolase_like; HAD-hyrolase-like (PF13242; HMM-score: 67)
    Hydrolase; haloacid dehalogenase-like hydrolase (PF00702; HMM-score: 46.8)
    HAD_2; haloacid dehalogenase-like hydrolase (PF13419; HMM-score: 42.8)
    Acid_phosphat_B; HAD superfamily, subfamily IIIB (Acid phosphatase) (PF03767; HMM-score: 11.8)

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

  • domains:
  • modifications:
  • cofactors: Mg2+
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • 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): 0.005465
    • TAT(Tat/SPI): 0.000134
    • LIPO(Sec/SPII): 0.000695
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKQYKAYLIDLDGTMYMGTDEIDGAKQFIDYLNVKGIPHLYVTNNSTKTPEQVTEKLREMHIDAKPEEVVTSALATADYISEQSPGASVYMLGGSGLNTALTEAGLVIKNDEHVDYVVIGLDEQVTYEKLAIATLGVRNGATFISTNPDVSIPKERGLLPGNGAITSVVSVSTGVSPQFIGKPEPIIMVKALEILGLDKSEVAMVGDLYDTDIMSGINVGMDTIHVQTGVSTLEDVQNKNVPPTYSFKDLNEAIAELEK

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3] [4]
  • quantitative data / protein copy number per cell: 1130 [5]
  • 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: 41.98 h [6]

⊟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, Jan Pané-Farré, Andreas Otto, Susanne Sievers, Michael Hecker, Dörte Becher
    Quantitative cell surface proteome profiling for SigB-dependent protein expression in the human pathogen Staphylococcus aureus via biotinylation approach.
    J Proteome Res: 2010, 9(3);1579-90
    [PubMed:20108986] [WorldCat.org] [DOI] (I p)
  3. ↑ 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)
  4. ↑ 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)
  5. ↑ Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)
  6. ↑ Stephan Michalik, Jörg Bernhardt, Andreas Otto, Martin Moche, Dörte Becher, Hanna Meyer, Michael Lalk, Claudia Schurmann, Rabea Schlüter, Holger Kock, Ulf Gerth, Michael Hecker
    Life and death of proteins: a case study of glucose-starved Staphylococcus aureus.
    Mol Cell Proteomics: 2012, 11(9);558-70
    [PubMed:22556279] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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