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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • 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 source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • 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 source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 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 source | edit]

General[edit source | edit]

  • 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 source | edit]

  • reaction:
    EC 1.1.1.28?  ExPASy
    D-lactate dehydrogenase(R)-lactate + NAD+ = pyruvate + NADH
  • TIGRFAM:
    MetabolismAmino acid biosynthesisSerine familyphosphoglycerate dehydrogenase (TIGR01327; EC 1.1.1.95; HMM-score: 154.7)
    MetabolismEnergy metabolismAmino acids and aminesalanine dehydrogenase (TIGR00518; EC 1.4.1.1; HMM-score: 19.7)
    MetabolismEnergy metabolismAmino acids and amines3-hydroxyisobutyrate dehydrogenase (TIGR01692; EC 1.1.1.31; HMM-score: 18.3)
    MetabolismAmino acid biosynthesisOtherpyrrolysine biosynthesis protein PylD (TIGR03911; HMM-score: 17.1)
    glutamate synthase, small subunit (TIGR01318; HMM-score: 16)
    MetabolismEnergy metabolismMethanogenesis5,10-methenyltetrahydromethanopterin hydrogenase (TIGR01723; EC 1.12.98.2; HMM-score: 14.7)
    MetabolismAmino acid biosynthesisAspartate familyaspartate-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)
    MetabolismEnergy metabolismElectron transportglutathione-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:  
    CarbohydratesFermentationFermentations: Lactate D-lactate dehydrogenase (EC 1.1.1.28) 
    FermentationFermentations: 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)
    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 & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • 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
    • Ymax: 0.14
    • Ymax_pos: 20
    • Cmax: 0.118
    • Cmax_pos: 44
    • Smax: 0.228
    • Smax_pos: 15
    • Smean: 0.169
    • D: 0.152
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MTKIMFFGTRDYEKEMALNWGKKNNVEVTTSKELLSSATVDQLKDYDGVTTMQFGKLENDVYPKLESYGIKQIAQRTAGFDMYDLDLAKKHNIVISNVPSYSPETIAEYSVSIALQLVRRFPDIERRVQAHDFTWQAEIMSKPVKNMTVAIIGTGRIGAATAKIYAGFGATITAYDAYPNKDLDFLTYKDSVKEAIKDADIISLHVPANKESYHLFDKAMFDHVKKGAILVNAARGAVINTPDLIAAVNDGTLLGAAIDTYENEAAYFTNDWTNKDIDDKTLLELIEHERILVTPHIAFFSDEAVQNLVEGGLNAALSVINTGTCETRLN

Experimental data[edit source | edit]

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

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

  • SACOL2535 no polycistronic organisation predicted

Regulation[edit source | edit]

  • sigma factor:
  • regulator: SACOL2035 (Rex*)
    Rex* (TF) important in Energy metabolism  RegPrecise

Transcription pattern[edit source | edit]

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

Protein stability[edit source | edit]

  • half-life: 56.84 h [5]

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  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 source | edit]