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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1432 [new locus tag: SACOL_RS07295 ]
  • pan locus tag?: SAUPAN003810000
  • symbol: dapD
  • pan gene symbol?: dapD
  • synonym:
  • product: 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL1432 [new locus tag: SACOL_RS07295 ]
  • symbol: dapD
  • product: 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase
  • replicon: chromosome
  • strand: +
  • coordinates: 1444494..1445213
  • length: 720
  • 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
    ATGGTACAACATTTAACAGCTGAAGAAATTATTCAATATATAAGTGATGCTAAAAAGTCT
    ACACCAATAAAAGTATATTTAAATGGTAATTTTGAAGGCATCACATATCCAGAAAGTTTT
    AAAGTATTTGGTTCAGAACAATCTAAAGTAATCTTTTGTGAAGCGGATGATTGGAAACCT
    TTTTACGAAGCATATGGTAGTCAATTCGAAGATATAGAAATTGAAATGGATCGTCGCAAT
    TCTGCTATTCCATTAAAAGACTTAACAAATACGAATGCACGAATTGAACCAGGTGCGTTT
    ATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAAT
    ATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGT
    GCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAA
    CCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTT
    ATTTTAGAAGGTGTACGTGTTGGTAAAGGTGCTATTGTTGCAGCTGGCGCGATTGTGACA
    CAAGATGTACCAGCTGGTGCAGTTGTTGCTGGTACACCTGCAAAAGTGATTAAGCAAGCT
    TCTGAAGTACAAGATACTAAAAAAGAGATTGTAGCAGCATTAAGAAAACTGAATGACTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL1432 [new locus tag: SACOL_RS07295 ]
  • symbol: DapD
  • description: 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase
  • length: 239
  • theoretical pI: 4.43859
  • theoretical MW: 25257.7
  • GRAVY: 0.10795

⊟Function[edit | edit source]

  • reaction:
    EC 2.3.1.89?  ExPASy
    Tetrahydrodipicolinate N-acetyltransferase Acetyl-CoA + (S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + H2O = CoA + L-2-acetamido-6-oxoheptanedioate
    EC 2.3.1.117?  ExPASy
    2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase Succinyl-CoA + (S)-2,3,4,5-tetrahydropyridine-2,6-dicarboxylate + H2O = CoA + N-succinyl-L-2-amino-6-oxoheptanedioate
  • TIGRFAM:
    2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase (TIGR03532; EC 2.3.1.89; HMM-score: 376.9)
    and 16 more
    Metabolism Amino acid biosynthesis Aspartate family 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (TIGR00965; EC 2.3.1.117; HMM-score: 95.9)
    sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family (TIGR03570; HMM-score: 91.6)
    phosphonate metabolim protein, transferase hexapeptide repeat family (TIGR03308; HMM-score: 57.4)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR01173; EC 2.3.1.157,2.7.7.23; HMM-score: 50.8)
    Cell structure Cell envelope Biosynthesis and degradation of murein sacculus and peptidoglycan UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR01173; EC 2.3.1.157,2.7.7.23; HMM-score: 50.8)
    Metabolism Central intermediary metabolism Amino sugars UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR01173; EC 2.3.1.157,2.7.7.23; HMM-score: 50.8)
    Metabolism Energy metabolism Other phenylacetic acid degradation protein PaaY (TIGR02287; HMM-score: 43.2)
    Metabolism Amino acid biosynthesis Serine family serine O-acetyltransferase (TIGR01172; EC 2.3.1.30; HMM-score: 42.4)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase LpxD (TIGR01853; EC 2.3.1.191; HMM-score: 41.9)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides acyl-[acyl-carrier-protein]-UDP-N-acetylglucosamine O-acyltransferase (TIGR01852; EC 2.3.1.129; HMM-score: 32.9)
    UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR03992; EC 2.3.1.157,2.7.7.23; HMM-score: 27.1)
    Cell structure Cell envelope Biosynthesis and degradation of murein sacculus and peptidoglycan UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR03991; EC 2.3.1.157,2.7.7.23; HMM-score: 26.8)
    Metabolism Central intermediary metabolism Amino sugars UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase (TIGR03991; EC 2.3.1.157,2.7.7.23; HMM-score: 26.8)
    non-ribosomal peptide synthetase terminal domain of unknown function (TIGR02353; HMM-score: 24.3)
    colanic acid biosynthesis acetyltransferase WcaB (TIGR04016; EC 2.3.1.-; HMM-score: 22.8)
    colanic acid biosynthesis acetyltransferase WcaF (TIGR04008; EC 2.3.1.-; HMM-score: 22.1)
  • TheSEED  :
    • 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase (EC 2.3.1.89)
    Amino Acids and Derivatives Lysine, threonine, methionine, and cysteine Lysine Biosynthesis DAP Pathway  2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase (EC 2.3.1.89)
  • PFAM:
    no clan defined DapH_N; Tetrahydrodipicolinate succinyltransferase N-terminal (PF08503; HMM-score: 108.3)
    and 2 more
    HEXAPEP (CL0536) Hexapep; Bacterial transferase hexapeptide (six repeats) (PF00132; HMM-score: 67.1)
    Hexapep_2; Hexapeptide repeat of succinyl-transferase (PF14602; HMM-score: 50)

⊟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): 0.01292
    • TAT(Tat/SPI): 0.000394
    • LIPO(Sec/SPII): 0.002679
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MVQHLTAEEIIQYISDAKKSTPIKVYLNGNFEGITYPESFKVFGSEQSKVIFCEADDWKPFYEAYGSQFEDIEIEMDRRNSAIPLKDLTNTNARIEPGAFIREQAIIEDGAVVMMGATINIGAVVGEGTMIDMNATLGGRATTGKNVHVGAGAVLAGVIEPPSASPVIIEDDVLIGANAVILEGVRVGKGAIVAAGAIVTQDVPAGAVVAGTPAKVIKQASEVQDTKKEIVAALRKLND

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3]
  • quantitative data / protein copy number per cell: 1687 [4]
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: L-box (transcription termination) regulon, CodY (repression) regulon
    L-box(RNA)important in Lysine biosynthesis; transcription unit transferred from N315 data RegPrecise 
    CodY(TF)important in Amino acid metabolism; 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: 26.24 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]

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