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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2293 [new locus tag: SACOL_RS12060 ]
  • pan locus tag?: SAUPAN005770000
  • symbol: SACOL2293
  • pan gene symbol?:
  • synonym:
  • product: NAD/NADP octopine/nopaline dehydrogenase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SACOL2293 [new locus tag: SACOL_RS12060 ]
  • symbol: SACOL2293
  • product: NAD/NADP octopine/nopaline dehydrogenase
  • replicon: chromosome
  • strand: -
  • coordinates: 2354063..2355145
  • length: 1083
  • 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
    1021
    1081
    ATGAAAATAGCAATTGTAGGATCAGGAAATGGCGCAGTTACGGCAGCAGTAGATATGGTG
    AGCAAAGGCCACGATGTTAAATTATATTGTCGTAATCAATCTATAAGTAAGTTTCAAAAC
    GCAATCGAAAAGGGCGGATTTGATTTTAATAATGAAGGTGATGAACGTTTCGTAAAATTC
    ACTGATATTAGTGATGATATGGAATATGTTTTAAAAGATGCTGAAATTGTTCAAGTGATT
    ATTCCATCTTCATACATAGAGTATTATGCTGATGTAATGGCAGAGCATGTAACTGATAAT
    CAGTTGATATTCTTCAACATGGCTGCAGCAATGGGGTCAATTCGTTTTATGAATGTTTTA
    GAAGATAGACATATTGAAACAAAACCACAACTAGCGGAAGCTAATACGTTGACGTATGGT
    ACGCGTGTCGATTTTGAAAATGCAGCAGTTGATTTATCTCTAAATGTACGTCGTATCTTC
    TTTTCAACATATGATAGAAGCTGTCTAAATGATTGTTATGACAAAGTTTCAAGTATTTAT
    GATCATTTAGTAAAAGAGGAAAGCTTAATTAAAACAAATCTTGAAAATGGTAATCCTGAA
    GTGCATCCAGGACCAACATTATTGAATGTCGGTCGCATTGATTATGCTGGCGAGTTCGCT
    TTATATAAAGAAGGAATTACTAAACATACAGTTAGATTACTTCATGCAATCGAATTAGAA
    CGTTTGAATTTAGGCCGTAGATTAGGTTTTGAATTATCAACAGCTAAAGAATCACGTATT
    GAACGTGGTTATTTAGAACGTGATAAAGAAGATGAACCATTAAATCGTTTGTTTAATACA
    AGCCCAGTATTTTCACAAATTCCAGGACCAAATCATGTAGAAAGCAGATATTTAACTGAA
    GATATTGCATATGGTTTAGTACTATGGTCAAGCTTAGGTCGTGTTATTGATGTACCGACA
    CCAAATATAGATGCAGTAATTGTAATTGCATCAACCATTTTAGAGAGAGACTTCTTTGAG
    GAAGGCTTAACAGTTGAAGAAATTGGTTTAGATAAGCTTGATTTAGAAAAATATTTAAAA
    TAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1083

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SACOL2293 [new locus tag: SACOL_RS12060 ]
  • symbol: SACOL2293
  • description: NAD/NADP octopine/nopaline dehydrogenase
  • length: 360
  • theoretical pI: 4.56718
  • theoretical MW: 40741.8
  • GRAVY: -0.2325

Function[edit source | edit]

  • TIGRFAM:
    9,9'-di-cis-zeta-carotene desaturase (TIGR02732; EC 1.3.5.6; HMM-score: 17.6)
    Unknown functionEnzymes of unknown specificityputative bacillithiol system oxidoreductase, YpdA family (TIGR04018; EC 1.8.-.-; HMM-score: 16.8)
    and 2 more
    MetabolismEnergy metabolismTCA cyclesuccinate dehydrogenase or fumarate reductase, flavoprotein subunit (TIGR01811; EC 1.3.99.1; HMM-score: 11.3)
    Genetic information processingProtein synthesistRNA and rRNA base modificationtRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain (TIGR03197; HMM-score: 10.9)
  • TheSEED:  
    D-octopine dehydrogenase 
  • PFAM:
    6PGD_C (CL0106) Octopine_DH; NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain (PF02317; HMM-score: 125.9)
    and 6 more
    NADP_Rossmann (CL0063) NAD_Gly3P_dh_N; NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus (PF01210; HMM-score: 22)
    Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 20.4)
    ApbA; Ketopantoate reductase PanE/ApbA (PF02558; HMM-score: 14.1)
    Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 14)
    FAD_binding_2; FAD binding domain (PF00890; HMM-score: 10.6)
    IlvN; Acetohydroxy acid isomeroreductase, NADPH-binding domain (PF07991; HMM-score: 10.5)

Structure, modifications & interactions[edit source | edit]

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

Localization[edit source | edit]

  • 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
    • Ymax: 0.16
    • Ymax_pos: 24
    • Cmax: 0.122
    • Cmax_pos: 24
    • Smax: 0.3
    • Smax_pos: 1
    • Smean: 0.217
    • D: 0.182
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MKIAIVGSGNGAVTAAVDMVSKGHDVKLYCRNQSISKFQNAIEKGGFDFNNEGDERFVKFTDISDDMEYVLKDAEIVQVIIPSSYIEYYADVMAEHVTDNQLIFFNMAAAMGSIRFMNVLEDRHIETKPQLAEANTLTYGTRVDFENAAVDLSLNVRRIFFSTYDRSCLNDCYDKVSSIYDHLVKEESLIKTNLENGNPEVHPGPTLLNVGRIDYAGEFALYKEGITKHTVRLLHAIELERLNLGRRLGFELSTAKESRIERGYLERDKEDEPLNRLFNTSPVFSQIPGPNHVESRYLTEDIAYGLVLWSSLGRVIDVPTPNIDAVIVIASTILERDFFEEGLTVEEIGLDKLDLEKYLK

Experimental data[edit source | edit]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [1] [2] [3]
    quantitative data / protein copy number per cell: 1734 [4]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor: RpoF regulon (SigB*) [5] other strains
    RpoF  (SigB*)(sigma factor)controlling a large regulon involved in stress/starvation response and adaptation
  • regulator:

Transcription pattern[edit source | edit]

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

Protein stability[edit source | edit]

  • half-life: no data available

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. Jan Pané-Farré, Beate Jonas, Konrad Förstner, Susanne Engelmann, Michael Hecker
    The sigmaB regulon in Staphylococcus aureus and its regulation.
    Int. J. Med. Microbiol.: 2006, 296(4-5);237-58
    [PubMed:16644280] [WorldCat.org] [DOI] (P p)

Relevant publications[edit source | edit]