From AureoWiki
Jump to navigation Jump to search

NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2446 [new locus tag: SACOL_RS12840 ]
  • pan locus tag?: SAUPAN005993000
  • symbol: SACOL2446
  • pan gene symbol?: —
  • synonym:
  • product: epimerase/dehydratase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2446 [new locus tag: SACOL_RS12840 ]
  • symbol: SACOL2446
  • product: epimerase/dehydratase
  • replicon: chromosome
  • strand: -
  • coordinates: 2506029..2506880
  • length: 852
  • 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
    ATGAGTAAAATTTTTGTAACTGGTGCAACGGGCCTTATTGGCATTAAATTAGTTCAAAGA
    CTAAAAGAAGAGGGGCATGAGGTTGCTGGTTTTACTACATCTGAGAATGGTCAACAAAAG
    CTAGCTGCTGTTAATGTAAAAGCATATATTGGTGATATATTAAAAGCTGATACTATTGAT
    CAAGCGTTAGCAGATTTTAAACCAGAAATCATTATCAATCAAATTACGGATTTAAAAAAT
    GTTGATATGGCAGCAAATACGAAAGTACGTATTGAAGGTTCTAAAAACCTAATTGATGCG
    GCGAAAAAGCATGACGTTAAGAAAGTAATTGCCCAAAGTATTGCCTTTATGTATGAACCT
    GGCGAAGGATTAGCAAATGAGGAAACTTCACTTGATTTTAACTCAACTGGCGATAGAAAA
    GTAACGGTTGATGGTGTGGTTGGTTTAGAAGAAGAAACGGCTCGTATGGATGAATACGTT
    GTTTTACGTTTTGGCTGGTTATATGGCCCAGGTACTTGGTACGGAAAAGATGGCATGATT
    TATAATCAATTTATGGATGGTCAAGTGACACTTTCAGATGGCGTAACATCATTTGTGCAT
    CTTGATGATGCAGTTGAAACATCTATTCAAGCTATTCATTTTGAAAATGGTATCTATAAT
    GTAGCAGATGATGCACCTGTTAAAGGTTCTGAATTTGCAGAATGGTATAAAGAACAACTT
    GGTGTTGAACCAAATATTGATATTCAACCTGCGCAACCATTTGAACGTGGCGTAAGCAAT
    GAGAAGTTTAAAGCGCAAGGTGGTACTCTGATTTATCAAACTTGGAAAGATGGCATGAAT
    CCAATTAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    852

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2446 [new locus tag: SACOL_RS12840 ]
  • symbol: SACOL2446
  • description: epimerase/dehydratase
  • length: 283
  • theoretical pI: 4.47599
  • theoretical MW: 31192
  • GRAVY: -0.30106

⊟Function[edit | edit source]

  • TIGRFAM:
    hopanoid-associated sugar epimerase (TIGR03466; HMM-score: 55.1)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides ADP-glyceromanno-heptose 6-epimerase (TIGR02197; EC 5.1.3.20; HMM-score: 46.7)
    Hypothetical proteins Conserved TIGR01777 family protein (TIGR01777; HMM-score: 45.3)
    and 15 more
    Metabolism Energy metabolism Sugars UDP-glucose 4-epimerase GalE (TIGR01179; EC 5.1.3.2; HMM-score: 35.7)
    NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family (TIGR04180; HMM-score: 32.9)
    UDP-N-acetylglucosamine 4,6-dehydratase (inverting) (TIGR03589; EC 4.2.1.115; HMM-score: 32.5)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides dTDP-4-dehydrorhamnose reductase (TIGR01214; EC 1.1.1.133; HMM-score: 31.9)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides CDP-glucose 4,6-dehydratase (TIGR02622; EC 4.2.1.45; HMM-score: 29.1)
    Metabolism Energy metabolism Biosynthesis and degradation of polysaccharides beta-phosphoglucomutase (TIGR01990; EC 5.4.2.6; HMM-score: 18.6)
    thioester reductase domain (TIGR01746; HMM-score: 18.5)
    lipid biosynthesis B12-binding/radical SAM protein (TIGR04072; HMM-score: 18.2)
    ergot alkaloid biosynthesis protein, AFUA_2G17970 family (TIGR03649; HMM-score: 17.8)
    acetoacetyl-CoA reductase (TIGR01829; EC 1.1.1.36; HMM-score: 17)
    Unknown function Enzymes of unknown specificity putative quinone oxidoreductase, YhdH/YhfP family (TIGR02823; HMM-score: 15.3)
    2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase (TIGR04316; EC 1.3.1.28; HMM-score: 14.8)
    Metabolism Fatty acid and phospholipid metabolism Biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase (TIGR01830; EC 1.1.1.100; HMM-score: 13.7)
    2-hydroxycyclohexanecarboxyl-CoA dehydrogenase (TIGR03206; EC 1.1.1.-; HMM-score: 13.6)
    3-hydroxybutyrate dehydrogenase (TIGR01963; HMM-score: 13.4)
  • TheSEED  :
    • Hypothetical protein, similar to glucose epimerase
  • PFAM:
    NADP_Rossmann (CL0063) Epimerase; NAD dependent epimerase/dehydratase family (PF01370; HMM-score: 70.6)
    and 12 more
    NAD_binding_10; NAD(P)H-binding (PF13460; HMM-score: 50.6)
    3Beta_HSD; 3-beta hydroxysteroid dehydrogenase/isomerase family (PF01073; HMM-score: 48.3)
    RmlD_sub_bind; RmlD substrate binding domain (PF04321; HMM-score: 40.4)
    Polysacc_synt_2; Polysaccharide biosynthesis protein (PF02719; HMM-score: 34.4)
    NmrA; NmrA-like family (PF05368; HMM-score: 26.6)
    GDP_Man_Dehyd; GDP-mannose 4,6 dehydratase (PF16363; HMM-score: 26.4)
    NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase (PF03446; HMM-score: 17.3)
    Semialdhyde_dh; Semialdehyde dehydrogenase, NAD binding domain (PF01118; HMM-score: 17)
    adh_short; short chain dehydrogenase (PF00106; HMM-score: 16.5)
    TrkA_N; TrkA-N domain (PF02254; HMM-score: 16.3)
    DapB_N; Dihydrodipicolinate reductase, N-terminus (PF01113; HMM-score: 13.2)
    KR; KR domain (PF08659; HMM-score: 12.5)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • 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
    • SP(Sec/SPI): 0.036072
    • TAT(Tat/SPI): 0.001727
    • LIPO(Sec/SPII): 0.003037
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSKIFVTGATGLIGIKLVQRLKEEGHEVAGFTTSENGQQKLAAVNVKAYIGDILKADTIDQALADFKPEIIINQITDLKNVDMAANTKVRIEGSKNLIDAAKKHDVKKVIAQSIAFMYEPGEGLANEETSLDFNSTGDRKVTVDGVVGLEEETARMDEYVVLRFGWLYGPGTWYGKDGMIYNQFMDGQVTLSDGVTSFVHLDDAVETSIQAIHFENGIYNVADDAPVKGSEFAEWYKEQLGVEPNIDIQPAQPFERGVSNEKFKAQGGTLIYQTWKDGMNPIK

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3]
  • quantitative data / protein copy number per cell: 242 [4]
  • 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: 32.33 h [5]

⊟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, 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)
  3. ↑ 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)
  4. ↑ 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)
  5. ↑ 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://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=SACOL2446&oldid=90487"