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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01908
  • pan locus tag?: SAUPAN004500000
  • symbol: SAOUHSC_01908
  • pan gene symbol?: smdA
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01908
  • symbol: SAOUHSC_01908
  • product: hypothetical protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1816537..1817445
  • length: 909
  • essential: yes [1] 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
    ATGGATTTATCTTCACCGATAGTCATTGGACTCATTATTGCAGTAGTCATTGCATTAATC
    TTTTTTGTCCTTTTTTTAGTTGCCTTAGGTAGTAAGAAAAAAGTTAAGCGACAAACAGAA
    GAAAAGTATGAACAACAAGAACAAAACATTAAAAAGTCTCATGAAGAAGCTTTAGAGAAA
    GAGCGTATTCAAAATAAAAAGACAATTACAAAACAACAAGAAGATTATAATCACATGGTT
    AGTACAAAAGATCGTGAGATTGACGCATTAAAATTGTTCTCGAAAAATCATAGTGAATAT
    GTAACGGACATGAGATTAATTGGTATTCGTGAAAGATTAGTTAAAGAAAAACGAATTCGA
    CCAGAAGATATGCACATTATGGCAAATATCTTTTTACCAAAGGATGGCTTTAATAATATT
    GAACGAATTAGTCATTTAGTATTAACAAGAACTGGTCTTTATATTATTGATTCTCAATTG
    TTAAAAGGTCATGTTTATAATGGTATTAGTGGCGGTCAATTTAAAGATTTACCACCAATG
    GAACAAGTATTTGATACATTGGATTTAGATAAATCTAGACCGCAAACTATTGTGATGGAT
    CAAAATGATGACAAACGTTCATTATCATTTGTAAATTATTCAGATCAAATTGAGGCGATT
    AAACAATTGGCTGAAGACTTACAAAAAGAATTAGGTGCCAAATATACACCAACTTCAATT
    TTATACTTTAATCTTAAAAATGAAGGCGATGTAACGATTTCAAATTATAATCAAAATAGT
    GCTGTCAAAGTGCTTGTCGGTGCTGAACAATTAGACGAGTTCTTTAACAAATTTGTATTC
    CATGGTCGTATTCAATACAACGTGGAAGACTTACAACAAATGATGGATAAAATTGAATCA
    TTCAATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    909

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01908
  • symbol: SAOUHSC_01908
  • description: hypothetical protein
  • length: 302
  • theoretical pI: 6.41787
  • theoretical MW: 35052.9
  • GRAVY: -0.457616

⊟Function[edit | edit source]

  • TIGRFAM:
    cardiolipin synthase (TIGR04265; EC 2.7.8.-; HMM-score: 15.3)
    Metabolism Transport and binding proteins Nucleosides, purines and pyrimidines nucleoside Transporter (TIGR00939; HMM-score: 12.3)
    and 5 more
    Metabolism Transport and binding proteins Unknown substrate efflux transporter, putative, hydrophobe/amphiphile efflux-3 (HAE3) family (TIGR00921; HMM-score: 12)
    Cellular processes Cellular processes Sporulation and germination transcription factor, RsfA family (TIGR02894; HMM-score: 11.5)
    Signal transduction Regulatory functions DNA interactions transcription factor, RsfA family (TIGR02894; HMM-score: 11.5)
    Unknown function General TIGR00374 family protein (TIGR00374; HMM-score: 11.3)
    Metabolism Energy metabolism Methanogenesis tetrahydromethanopterin S-methyltransferase, subunit B (TIGR04166; EC 2.1.1.86; HMM-score: 7)
  • TheSEED  :
    • Hypothetical protein SAV1789
  • PFAM:
    PDDEXK (CL0236) NERD; Nuclease-related domain (PF08378; HMM-score: 25.3)
    no clan defined DUF4834; Domain of unknown function (DUF4834) (PF16118; HMM-score: 25.3)
    FlaX; FlaX (PF24151; HMM-score: 22.8)
    and 30 more
    Oxa1 (CL0376) EMC3_TMCO1; Integral membrane protein EMC3/TMCO1-like (PF01956; HMM-score: 17.6)
    MFS (CL0015) CLN3; CLN3 protein (PF02487; HMM-score: 16.2)
    no clan defined Tmemb_9; TMEM9 (PF05434; HMM-score: 15.6)
    FAM176; FAM176 family (PF14851; HMM-score: 15.6)
    IT (CL0182) ArsP_1; Predicted permease (PF03773; HMM-score: 15.2)
    no clan defined SecD-TM1; SecD export protein N-terminal TM region (PF13721; HMM-score: 15.2)
    TPR (CL0020) DUF6377; Domain of unknown function (DUF6377) (PF19904; HMM-score: 14.9)
    no clan defined DUF6779; Domain of unknown function (DUF6779) (PF20570; HMM-score: 14.5)
    Polo-box (CL0708) C5orf34_2nd; C5orf34-like, second domain (PF22833; HMM-score: 14.3)
    FixH-like (CL0488) FixH; FixH (PF05751; HMM-score: 13.9)
    no clan defined PFF1_TM; Vacuolar membrane protease, transmembrane domain (PF22251; HMM-score: 13.7)
    DMT (CL0184) CSG2; Ceramide synthase regulator (PF16965; HMM-score: 13.6)
    no clan defined DUF7394; Family of unknown function (DUF7394) (PF24126; HMM-score: 13.6)
    HTH (CL0123) WH_AprA; AprA winged helix domain (PF23589; HMM-score: 13.5)
    no clan defined EphA2_TM; Ephrin type-A receptor 2 transmembrane domain (PF14575; HMM-score: 13.3)
    DUF4446; Protein of unknown function (DUF4446) (PF14584; HMM-score: 13.3)
    DUF7807; Family of unknown function (DUF7807) (PF25093; HMM-score: 13.3)
    Cadherin_C_2; Cadherin cytoplasmic C-terminal (PF16492; HMM-score: 13.1)
    DUF7261; Family of unknown function (DUF7261) (PF23922; HMM-score: 13)
    Baculo_11_kDa; Baculovirus 11 kDa family (PF06143; HMM-score: 12.6)
    FraC; Filament integrity protein FraC (PF24301; HMM-score: 12.5)
    LapA_dom; Lipopolysaccharide assembly protein A domain (PF06305; HMM-score: 12.4)
    DUF3169; Protein of unknown function (DUF3169) (PF11368; HMM-score: 12.3)
    Transporter (CL0375) Connexin; Connexin (PF00029; HMM-score: 11.8)
    no clan defined DUF4006; Family of unknown function (DUF4006) (PF13179; HMM-score: 11.7)
    C_Lectin (CL0056) Ly49; Ly49-like protein, N-terminal region (PF08391; HMM-score: 10.8)
    no clan defined DUF4407; Domain of unknown function (DUF4407) (PF14362; HMM-score: 10.8)
    Piezo_TM1-24; Piezo TM1-24 (PF24871; HMM-score: 10.7)
    MtrB; Tetrahydromethanopterin S-methyltransferase subunit B (PF05440; HMM-score: 7.4)
    O-anti_assembly (CL0499) O-antigen_lig; O-antigen ligase like membrane protein (PF13425; HMM-score: 7.1)

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

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 3.33
    • Cellwall Score: 3.33
    • Extracellular Score: 3.33
    • Internal Helix: 1
  • DeepLocPro: Cytoplasmic Membrane
    • Cytoplasmic Score: 0.0005
    • Cytoplasmic Membrane Score: 0.9635
    • Cell wall & surface Score: 0.0014
    • Extracellular Score: 0.0345
  • LocateP: N-terminally anchored (No CS)
    • Prediction by SwissProt Classification: Membrane
    • Pathway Prediction: Sec-(SPI)
    • Intracellular possibility: 0.17
    • Signal peptide possibility: 0.5
    • N-terminally Anchored Score: 4
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.017489
    • TAT(Tat/SPI): 0.000786
    • LIPO(Sec/SPII): 0.130279
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MDLSSPIVIGLIIAVVIALIFFVLFLVALGSKKKVKRQTEEKYEQQEQNIKKSHEEALEKERIQNKKTITKQQEDYNHMVSTKDREIDALKLFSKNHSEYVTDMRLIGIRERLVKEKRIRPEDMHIMANIFLPKDGFNNIERISHLVLTRTGLYIIDSQLLKGHVYNGISGGQFKDLPPMEQVFDTLDLDKSRPQTIVMDQNDDKRSLSFVNYSDQIEAIKQLAEDLQKELGAKYTPTSILYFNLKNEGDVTISNYNQNSAVKVLVGAEQLDEFFNKFVFHGRIQYNVEDLQQMMDKIESFN

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [2] [3]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟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. ↑ Roy R Chaudhuri, Andrew G Allen, Paul J Owen, Gil Shalom, Karl Stone, Marcus Harrison, Timothy A Burgis, Michael Lockyer, Jorge Garcia-Lara, Simon J Foster, Stephen J Pleasance, Sarah E Peters, Duncan J Maskell, Ian G Charles
    Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH).
    BMC Genomics: 2009, 10;291
    [PubMed:19570206] [WorldCat.org] [DOI] (I e)
  2. ↑ 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)
  3. ↑ 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)
  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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