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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2535 [new locus tag: SACOL_RS13280 ]
  • pan locus tag?: SAUPAN006169000
  • symbol: SACOL2535
  • pan gene symbol?: ddh
  • synonym:
  • product: D-lactate dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2535 [new locus tag: SACOL_RS13280 ]
  • symbol: SACOL2535
  • product: D-lactate dehydrogenase
  • replicon: chromosome
  • strand: +
  • coordinates: 2596114..2597106
  • length: 993
  • 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
    961
    ATGACAAAAATTATGTTCTTTGGTACGCGTGATTATGAGAAAGAGATGGCATTAAATTGG
    GGGAAAAAGAATAATGTCGAAGTAACTACTTCTAAAGAGCTATTATCAAGTGCTACAGTC
    GATCAATTAAAAGATTACGATGGCGTAACTACAATGCAATTTGGTAAGTTAGAAAATGAC
    GTTTATCCTAAATTAGAATCTTACGGTATTAAACAAATTGCACAACGTACTGCTGGATTT
    GATATGTATGATTTAGATTTAGCTAAAAAACACAATATTGTGATATCTAACGTTCCTAGT
    TATTCACCTGAAACAATTGCAGAGTATTCTGTTTCTATCGCCCTACAATTAGTGCGTCGC
    TTCCCAGATATTGAACGCCGTGTACAAGCACATGATTTTACTTGGCAAGCAGAAATCATG
    TCTAAACCAGTTAAAAATATGACTGTTGCAATTATTGGTACGGGTCGTATCGGTGCTGCT
    ACAGCTAAAATATATGCAGGATTTGGTGCTACAATTACAGCTTATGACGCCTATCCTAAT
    AAAGATTTAGACTTTTTAACTTATAAAGATAGTGTTAAAGAAGCTATTAAAGATGCCGAT
    ATTATTTCTTTACATGTTCCAGCGAACAAAGAAAGCTATCATTTATTCGATAAAGCAATG
    TTTGATCATGTGAAAAAAGGTGCAATCTTAGTTAACGCAGCACGTGGTGCAGTCATCAAT
    ACACCTGATTTAATCGCTGCAGTGAACGATGGTACTTTGTTAGGTGCTGCGATTGATACT
    TATGAAAATGAAGCAGCATACTTCACAAATGACTGGACTAATAAAGACATTGACGATAAA
    ACATTATTAGAGTTAATCGAACATGAAAGAATTTTAGTAACACCACATATTGCTTTCTTC
    TCTGATGAAGCAGTACAAAACCTTGTTGAAGGTGGTTTAAACGCAGCATTATCTGTCATT
    AACACTGGTACATGTGAAACACGTTTAAATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    993

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2535 [new locus tag: SACOL_RS13280 ]
  • symbol: SACOL2535
  • description: D-lactate dehydrogenase
  • length: 330
  • theoretical pI: 4.89771
  • theoretical MW: 36681.4
  • GRAVY: -0.193636

⊟Function[edit | edit source]

  • reaction:
    EC 1.1.1.28?  ExPASy
    D-lactate dehydrogenase (R)-lactate + NAD+ = pyruvate + NADH
  • TIGRFAM:
    Metabolism Amino acid biosynthesis Serine family phosphoglycerate dehydrogenase (TIGR01327; EC 1.1.1.95; HMM-score: 154.7)
    and 11 more
    Metabolism Energy metabolism Amino acids and amines alanine dehydrogenase (TIGR00518; EC 1.4.1.1; HMM-score: 19.7)
    Metabolism Energy metabolism Amino acids and amines 3-hydroxyisobutyrate dehydrogenase (TIGR01692; EC 1.1.1.31; HMM-score: 18.3)
    Metabolism Amino acid biosynthesis Other pyrrolysine biosynthesis protein PylD (TIGR03911; HMM-score: 17.1)
    glutamate synthase, small subunit (TIGR01318; HMM-score: 16)
    Metabolism Energy metabolism Methanogenesis 5,10-methenyltetrahydromethanopterin hydrogenase (TIGR01723; EC 1.12.98.2; HMM-score: 14.7)
    Metabolism Amino acid biosynthesis Aspartate family aspartate-semialdehyde dehydrogenase (TIGR01745; EC 1.2.1.11; HMM-score: 13.8)
    dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 13.5)
    2-hydroxy-3-oxopropionate reductase (TIGR01505; EC 1.1.1.60; HMM-score: 13)
    nucleotide sugar dehydrogenase (TIGR03026; HMM-score: 13)
    Metabolism Energy metabolism Electron transport glutathione-disulfide reductase (TIGR01424; EC 1.8.1.7; HMM-score: 12.1)
    3-hydroxyacyl-CoA dehydrogenase PaaC (TIGR02279; EC 1.1.1.-; HMM-score: 11.6)
  • TheSEED  :
    • D-lactate dehydrogenase (EC 1.1.1.28)
    Carbohydrates Fermentation Fermentations: Lactate  D-lactate dehydrogenase (EC 1.1.1.28)
    and 1 more
    Carbohydrates Fermentation Fermentations: Mixed acid  D-lactate dehydrogenase (EC 1.1.1.28)
  • PFAM:
    NADP_Rossmann (CL0063) 2-Hacid_dh_C; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (PF02826; HMM-score: 173.2)
    and 11 more
    Form_Glyc_dh (CL0325) 2-Hacid_dh; D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain (PF00389; HMM-score: 89.8)
    NADP_Rossmann (CL0063) NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase (PF03446; HMM-score: 26.5)
    AlaDh_PNT_C; Alanine dehydrogenase/PNT, C-terminal domain (PF01262; HMM-score: 23.8)
    IlvN; Acetohydroxy acid isomeroreductase, NADPH-binding domain (PF07991; HMM-score: 21.9)
    3HCDH_N; 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain (PF02737; HMM-score: 16.2)
    UDPG_MGDP_dh_N; UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain (PF03721; HMM-score: 16)
    NAD_binding_7; Putative NAD(P)-binding (PF13241; HMM-score: 15.9)
    NAD_Gly3P_dh_N; NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus (PF01210; HMM-score: 15.5)
    Rossmann-like; Rossmann-like domain (PF10727; HMM-score: 15.1)
    F420_oxidored; NADP oxidoreductase coenzyme F420-dependent (PF03807; HMM-score: 15)
    Form_Glyc_dh (CL0325) DpaA_N; Dipicolinate synthase subunit A N-terminal domain (PF16924; HMM-score: 13.2)

⊟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): 0.009748
    • TAT(Tat/SPI): 0.000599
    • LIPO(Sec/SPII): 0.001647
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTKIMFFGTRDYEKEMALNWGKKNNVEVTTSKELLSSATVDQLKDYDGVTTMQFGKLENDVYPKLESYGIKQIAQRTAGFDMYDLDLAKKHNIVISNVPSYSPETIAEYSVSIALQLVRRFPDIERRVQAHDFTWQAEIMSKPVKNMTVAIIGTGRIGAATAKIYAGFGATITAYDAYPNKDLDFLTYKDSVKEAIKDADIISLHVPANKESYHLFDKAMFDHVKKGAILVNAARGAVINTPDLIAAVNDGTLLGAAIDTYENEAAYFTNDWTNKDIDDKTLLELIEHERILVTPHIAFFSDEAVQNLVEGGLNAALSVINTGTCETRLN

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3]
  • quantitative data / protein copy number per cell: 579 [4]
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: Rex* (repression) regulon
    Rex*(TF)important in Energy metabolism; RegPrecise 

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: 56.84 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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