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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01401
  • pan locus tag?: SAUPAN003813000
  • symbol: SAOUHSC_01401
  • pan gene symbol?: lysA
  • synonym:
  • product: diaminopimelate decarboxylase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01401
  • symbol: SAOUHSC_01401
  • product: diaminopimelate decarboxylase
  • replicon: chromosome
  • strand: +
  • coordinates: 1343814..1345079
  • length: 1266
  • essential: no DEG 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
    961
    1021
    1081
    1141
    1201
    1261
    ATGACTGTTAAATATAATCAAAATGGCGAATTAACAATGGATGGTATTAGTTTAAAAACG
    ATTGCACAAAGCTTTGGTACACCTACCATTGTTTATGATGAACTACAAATTAGAGAACAG
    ATGCGCCGTTACCATCGCGCATTTAAAGATAGTGGATTAAAATACAATATTTCATACGCC
    TCAAAGGCATTTACTTGCATTCAAATGGTCAAACTTGTAGCTGAGGAAGATTTACAGTTA
    GATGTTGTTTCTGAAGGTGAATTATATACAGCTTTAGAAGCAGGTTTTGAACCGAGTCGC
    ATCCATTTCCATGGTAACAATAAAACGAAACATGAAATTAGGTATGCTTTAGAAAATAAT
    ATCGGTTATTTTGTTATAGATTCATTAGAAGAAATTGAATTAATAGACCGCTATGCTAAT
    GATACGGTTCAAGTTGTATTACGAGTTAATCCAGGTGTTGAAGCACATACACACGAATTT
    ATTCAAACTGGGCAAGAAGATAGTAAGTTTGGATTATCAATTCAATATGGCTTAGCTAAA
    AAAGCAATTGACAAAGTCCAACAATCTAAACACTTAAAATTAAAAGGTGTACATTGTCAT
    ATTGGTTCACAGATTGAAGGTACAGAAGCATTTATTGAAACTGCTAAAATTGTTTTACGT
    TGGCTTAAAGAGCAAGGCATTCAAGTTGAATTATTAAACCTTGGTGGTGGCTTTGGTATT
    AAATATGTTGAAGGTGACGAAAGTTTCCCTATCGAAAGTGGTATTAAAGATATTACAGAC
    GCAATAAAATCCGAAATTAAAGTTCTAGGTATAGATGCACCAGAAATAGGTATTGAACCG
    GGACGATCAATTGTAGGTGAAGCTGGCGTTACTTTATATGAAGTTGGAACCATTAAAGAA
    ATTCCAGAGATTAATAAATATGTTTCAATCGATGGCGGTATGAGTGATCATATCAGAACT
    GCACTTTATGACGCAAAGTATCAAGCATTGCTTGTTAATAGAAATGAAGAAGCAGATGAC
    AGTGTAACTATAGCTGGAAAATTATGTGAGTCTGGTGATATCATTATTAAAGACGCTAAA
    TTACCTTCATCAGTCAAACGTGGAGACTATCTTGCTATATTATCAACTGGTGCATATCAT
    TACTCTATGGCATCCAATTACAATCAAATGCAAAAGCCTTCTGTGTTTTTCTTAAAAGAT
    GGCAAAGCACGTGAAGTTATAAAGCGACAATCGTTAAGACAACTCATTATTAATGATACA
    AAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1266

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01401
  • symbol: SAOUHSC_01401
  • description: diaminopimelate decarboxylase
  • length: 421
  • theoretical pI: 5.65794
  • theoretical MW: 47034.2
  • GRAVY: -0.284086

⊟Function[edit | edit source]

  • reaction:
    EC 4.1.1.20?  ExPASy
    Diaminopimelate decarboxylase Meso-2,6-diaminoheptanedioate = L-lysine + CO2
  • TIGRFAM:
    Metabolism Amino acid biosynthesis Aspartate family diaminopimelate decarboxylase (TIGR01048; EC 4.1.1.20; HMM-score: 461.8)
    and 4 more
    pyridoxal-dependent decarboxylase, exosortase A system-associated (TIGR03099; HMM-score: 183.8)
    Metabolism Central intermediary metabolism Polyamine biosynthesis arginine decarboxylase (TIGR01273; EC 4.1.1.19; HMM-score: 57.8)
    Metabolism Central intermediary metabolism Polyamine biosynthesis carboxynorspermidine decarboxylase (TIGR01047; HMM-score: 38)
    Unknown function Enzymes of unknown specificity pyridoxal phosphate enzyme, YggS family (TIGR00044; HMM-score: 12.7)
  • TheSEED  :
    • Diaminopimelate decarboxylase (EC 4.1.1.20)
    Amino Acids and Derivatives Lysine, threonine, methionine, and cysteine Lysine Biosynthesis DAP Pathway  Diaminopimelate decarboxylase (EC 4.1.1.20)
  • PFAM:
    TIM_barrel (CL0036) Orn_Arg_deC_N; Pyridoxal-dependent decarboxylase, pyridoxal binding domain (PF02784; HMM-score: 226)
    and 2 more
    no clan defined Orn_DAP_Arg_deC; Pyridoxal-dependent decarboxylase, C-terminal sheet domain (PF00278; HMM-score: 67.3)
    TIM_barrel (CL0036) Ala_racemase_N; Alanine racemase, N-terminal domain (PF01168; HMM-score: 21)

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

  • domains:
  • modifications:
  • cofactors: pyridoxal 5'-phosphate
  • 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: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.007004
    • TAT(Tat/SPI): 0.000502
    • LIPO(Sec/SPII): 0.001808
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTVKYNQNGELTMDGISLKTIAQSFGTPTIVYDELQIREQMRRYHRAFKDSGLKYNISYASKAFTCIQMVKLVAEEDLQLDVVSEGELYTALEAGFEPSRIHFHGNNKTKHEIRYALENNIGYFVIDSLEEIELIDRYANDTVQVVLRVNPGVEAHTHEFIQTGQEDSKFGLSIQYGLAKKAIDKVQQSKHLKLKGVHCHIGSQIEGTEAFIETAKIVLRWLKEQGIQVELLNLGGGFGIKYVEGDESFPIESGIKDITDAIKSEIKVLGIDAPEIGIEPGRSIVGEAGVTLYEVGTIKEIPEINKYVSIDGGMSDHIRTALYDAKYQALLVNRNEEADDSVTIAGKLCESGDIIIKDAKLPSSVKRGDYLAILSTGAYHYSMASNYNQMQKPSVFFLKDGKAREVIKRQSLRQLIINDTK

⊟Experimental data[edit | edit source]

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: L-box (transcription termination) regulon, CodY* (repression) regulon
    L-box(5' cis-acting region)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: 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]

  1. ↑ Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  3. ↑ 3.00 3.01 3.02 3.03 3.04 3.05 3.06 3.07 3.08 3.09 3.10 3.11 3.12 3.13 3.14 3.15 3.16 3.17 3.18 3.19 3.20 3.21 3.22 3.23 3.24 3.25 3.26 3.27 3.28 3.29 3.30 3.31 3.32 3.33 3.34 3.35 3.36 3.37 3.38 3.39 3.40 3.41 3.42 3.43 3.44 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)
  4. ↑ 4.0 4.1 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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