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NCBI: 26-AUG-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA1232 [new locus tag: SA_RS06995 ]
  • pan locus tag?: SAUPAN003813000
  • symbol: lysA
  • 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: SA1232 [new locus tag: SA_RS06995 ]
  • symbol: lysA
  • product: diaminopimelate decarboxylase
  • replicon: chromosome
  • strand: +
  • coordinates: 1406729..1407994
  • 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: SA1232 [new locus tag: SA_RS06995 ]
  • symbol: LysA
  • 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]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:
    SA0033(aadD)kanamycin nucleotidyltransferase  [1] (data from MRSA252)
    SA1984(asp23)alkaline shock protein 23  [1] (data from MRSA252)
    SA0471(cysK)hypothetical protein  [1] (data from MRSA252)
    SA1409(dnaK)molecular chaperone DnaK  [1] (data from MRSA252)
    SA0002(dnaN)DNA polymerase III subunit beta  [1] (data from MRSA252)
    SA0843(fab)3-oxoacyl-ACP synthase  [1] (data from MRSA252)
    SA0727(gap)glyceraldehyde-3-phosphate dehydrogenase  [1] (data from MRSA252)
    SA1510(gapB)glyceraldehyde 3-phosphate dehydrogenase 2  [1] (data from MRSA252)
    SA1716(gatA)aspartyl/glutamyl-tRNA amidotransferase subunit A  [1] (data from MRSA252)
    SA1715(gatB)aspartyl/glutamyl-tRNA amidotransferase subunit B  [1] (data from MRSA252)
    SA1959(glmS)glucosamine--fructose-6-phosphate aminotransferase  [1] (data from MRSA252)
    SA1342(gnd)6-phosphogluconate dehydrogenase  [1] (data from MRSA252)
    SA2204(gpmA)phosphoglyceromutase  [1] (data from MRSA252)
    SA1836(groEL)molecular chaperone GroEL  [1] (data from MRSA252)
    SA0232(lctE)L-lactate dehydrogenase  [1] (data from MRSA252)
    SA2400(mqo2)malate:quinone oxidoreductase  [1] (data from MRSA252)
    SA2334(mvaS)3-hydroxy-3-methylglutaryl-CoA synthase  [1] (data from MRSA252)
    SA0943-1(pdhA)pyruvate dehydrogenase E1 component subunit alpha  [1] (data from MRSA252)
    SA0944(pdhB)pyruvate dehydrogenase E1 component subunit beta  [1] (data from MRSA252)
    SA0945(pdhC)branched-chain alpha-keto acid dehydrogenase E2 subunit  [1] (data from MRSA252)
    SA0946(pdhD)dihydrolipoamide dehydrogenase  [1] (data from MRSA252)
    SA1521(pfkA)6-phosphofructokinase  [1] (data from MRSA252)
    SA0218(pflB)formate acetyltransferase  [1] (data from MRSA252)
    SA0823(pgi)glucose-6-phosphate isomerase  [1] (data from MRSA252)
    SA0934(ptsH)phosphocarrier protein HPr  [1] (data from MRSA252)
    SA1520(pykA)pyruvate kinase  [1] (data from MRSA252)
    SA2035(rplE)50S ribosomal protein L5  [1] (data from MRSA252)
    SA0497(rplJ)50S ribosomal protein L10  [1] (data from MRSA252)
    SA0498(rplL)50S ribosomal protein L7/L12  [1] (data from MRSA252)
    SA2029(rplO)50S ribosomal protein L15  [1] (data from MRSA252)
    SA2022(rplQ)50S ribosomal protein L17  [1] (data from MRSA252)
    SA1084(rplS)50S ribosomal protein L19  [1] (data from MRSA252)
    SA2042(rplV)50S ribosomal protein L22  [1] (data from MRSA252)
    SA2045(rplW)50S ribosomal protein L23  [1] (data from MRSA252)
    SA0459(rplY)50S ribosomal protein L25  [1] (data from MRSA252)
    SA2030(rpmD)50S ribosomal protein L30  [1] (data from MRSA252)
    SA1099(rpsB)30S ribosomal protein S2  [1] (data from MRSA252)
    SA2041(rpsC)30S ribosomal protein S3  [1] (data from MRSA252)
    SA2031(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    SA2048(rpsJ)30S ribosomal protein S10  [1] (data from MRSA252)
    SA0506(tuf)elongation factor Tu  [1] (data from MRSA252)
    SA1914(upp)uracil phosphoribosyltransferase  [1] (data from MRSA252)
    SA0351GTP-dependent nucleic acid-binding protein EngD  [1] (data from MRSA252)
    SA0802hypothetical protein  [1] (data from MRSA252)
    SA1532hypothetical protein  [1] (data from MRSA252)
    SA2399fructose-1,6-bisphosphate aldolase  [1] (data from MRSA252)

⊟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; RegPrecise 
    CodY(TF)important in Amino acid metabolism; 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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 1.26 1.27 1.28 1.29 1.30 1.31 1.32 1.33 1.34 1.35 1.36 1.37 1.38 1.39 1.40 1.41 1.42 1.43 1.44 1.45 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)

⊟Relevant publications[edit | edit source]

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