From AureoWiki
Jump to navigation Jump to search

NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2296 [new locus tag: SACOL_RS12080 ]
  • pan locus tag?: SAUPAN005775000
  • symbol: SACOL2296
  • pan gene symbol?: —
  • synonym:
  • product: glycerate dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2296 [new locus tag: SACOL_RS12080 ]
  • symbol: SACOL2296
  • product: glycerate dehydrogenase
  • replicon: chromosome
  • strand: +
  • coordinates: 2356914..2357867
  • length: 954
  • 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
    ATGGAAAAAGTTTATGTTGCTGGTGCAATACCAGAAGTAGGTTTAAAACTTTTACAAGAA
    CATTTTGAAGTTGAAATGTATGAAGGTAAAGGATTAGTCGATAAAGACACTTTAATTAAA
    GGTGTTAAAAACGCGACTGCCTTAATTAGTTTATTATCTACAAACGTTGATAAAGATGTT
    ATCGATGCTGGTAAAGACTTAAAAATCATTGCCAACTATGGCGCTGGTTTTAATAATATT
    GATATCGAGTATGCCCGAGAAAAAAGTATAGATGTTACAAACACACCTAAAGCATCAACA
    AACGCGACTGCTGATTTAACAATTGGATTAGTACTTGCAGTAGCGCGTCGTATTGTTGAA
    GGGGACCAATTATCACGTACAACTGGATTTGATGGATGGGCACCTTTATTTTTCAGAGGT
    AGAGAAGTATCTGGGAAAACAATCGGCATTATCGGTTTAGGTGAAATTGGTAGTGCAGTA
    GCTCGTCGTGCAAGAGCATTTGACATGGATGTGCTATACACTGGACCTAATCGCAAAGAA
    GAAAAAGAACGAGAAATCGGTGCAAAATATGTAGATTTAGATACACTATTAAAGAATGCA
    GATTTTATCACTATCAACGCTGCTTATAATCCTAAAATGCATCATTTAATTGATACAGAA
    CAATTTAAAATGATGAAATCTACGGCGTATTTAATCAATGCCTCTCGTGGTCCAATCGTG
    CACGAACAAGCACTAGTGCAAGCATTGAAAGATAATGAAATTGAAGGTGCTGCACTTGAT
    GTATATGAATTTGAACCAGATATTACCGATGACTTAAAATCACTTAATAATGTAGTATTA
    ACACCGCATATTGGTAATGCTACATTTGAAGCACGTGACATGATGTCTAAAATTGTTGCT
    AATGCTGCAATTAGTGCCGTTCAAGGTGAGAAACCACAATTTGTCGTTAACTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    954

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2296 [new locus tag: SACOL_RS12080 ]
  • symbol: SACOL2296
  • description: glycerate dehydrogenase
  • length: 317
  • theoretical pI: 4.91492
  • theoretical MW: 34674.3
  • GRAVY: -0.127445

⊟Function[edit | edit source]

  • reaction:
    EC 1.1.1.-?  ExPASy
  • TIGRFAM:
    Metabolism Amino acid biosynthesis Serine family phosphoglycerate dehydrogenase (TIGR01327; EC 1.1.1.95; HMM-score: 268)
    and 2 more
    Metabolism Energy metabolism Amino acids and amines adenosylhomocysteinase (TIGR00936; EC 3.3.1.1; HMM-score: 17.5)
    Metabolism Amino acid biosynthesis Pyruvate family ketol-acid reductoisomerase (TIGR00465; EC 1.1.1.86; HMM-score: 12.1)
  • TheSEED  :
    • Glyoxylate reductase (EC 1.1.1.26)
    • Glyoxylate reductase (EC 1.1.1.79)
    • Hydroxypyruvate reductase (EC 1.1.1.81)
    Carbohydrates Central carbohydrate metabolism Glycolate, glyoxylate interconversions  Glyoxylate reductase (EC 1.1.1.26)
    and 3 more
    Carbohydrates Central carbohydrate metabolism Glycolate, glyoxylate interconversions  Glyoxylate reductase (EC 1.1.1.79)
    Carbohydrates Central carbohydrate metabolism Glycolate, glyoxylate interconversions  Hydroxypyruvate reductase (EC 1.1.1.81)
    Carbohydrates Organic acids Glycerate metabolism  Hydroxypyruvate reductase (EC 1.1.1.81)
  • PFAM:
    NADP_Rossmann (CL0063) 2-Hacid_dh_C; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (PF02826; HMM-score: 203)
    and 5 more
    Form_Glyc_dh (CL0325) 2-Hacid_dh; D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain (PF00389; HMM-score: 113.3)
    NADP_Rossmann (CL0063) IlvN; Acetohydroxy acid isomeroreductase, NADPH-binding domain (PF07991; HMM-score: 21)
    F420_oxidored; NADP oxidoreductase coenzyme F420-dependent (PF03807; HMM-score: 19.4)
    NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase (PF03446; HMM-score: 18.3)
    AdoHcyase_NAD; S-adenosyl-L-homocysteine hydrolase, NAD binding domain (PF00670; HMM-score: 13.6)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • 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): 0.001313
    • TAT(Tat/SPI): 0.000138
    • LIPO(Sec/SPII): 0.000235
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MEKVYVAGAIPEVGLKLLQEHFEVEMYEGKGLVDKDTLIKGVKNATALISLLSTNVDKDVIDAGKDLKIIANYGAGFNNIDIEYAREKSIDVTNTPKASTNATADLTIGLVLAVARRIVEGDQLSRTTGFDGWAPLFFRGREVSGKTIGIIGLGEIGSAVARRARAFDMDVLYTGPNRKEEKEREIGAKYVDLDTLLKNADFITINAAYNPKMHHLIDTEQFKMMKSTAYLINASRGPIVHEQALVQALKDNEIEGAALDVYEFEPDITDDLKSLNNVVLTPHIGNATFEARDMMSKIVANAAISAVQGEKPQFVVN

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3] [4]
  • quantitative data / protein copy number per cell: 652 [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: 54.44 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]

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SACOL2296&oldid=92449"