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PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 03-AUG-2016

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⊟Summary[edit | edit source]

Contents

  • 1 Summary
  • 2 Genome View
  • 3 Gene
    • 3.1 General
    • 3.2 Accession numbers
    • 3.3 Phenotype
    • 3.4 DNA sequence
  • 4 Protein
    • 4.1 General
    • 4.2 Function
    • 4.3 Structure, modifications & cofactors
    • 4.4 Localization
    • 4.5 Accession numbers
    • 4.6 Protein sequence
    • 4.7 Experimental data
  • 5 Expression & Regulation
    • 5.1 Operon
    • 5.2 Regulation
    • 5.3 Transcription pattern
    • 5.4 Protein synthesis (provided by Aureolib)
    • 5.5 Protein stability
  • 6 Biological Material
    • 6.1 Mutants
    • 6.2 Expression vector
    • 6.3 lacZ fusion
    • 6.4 GFP fusion
    • 6.5 two-hybrid system
    • 6.6 FLAG-tag construct
    • 6.7 Antibody
  • 7 Other Information
  • 8 Literature
    • 8.1 References
    • 8.2 Relevant publications
  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01588
  • pan locus tag?: SAUPAN004027000
  • symbol: SAOUHSC_01588
  • pan gene symbol?: scpB
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01588
  • symbol: SAOUHSC_01588
  • product: hypothetical protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1515054..1515596
  • length: 543
  • essential: no [1] DEG other strains

⊟Accession numbers[edit | edit source]

  • Gene ID: 3920004 NCBI
  • RefSeq: YP_500103 NCBI
  • BioCyc: G1I0R-1476 BioCyc
  • MicrobesOnline: 1290017 MicrobesOnline

⊟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
    TTGGATAATCATGGTATATTAGAGTCGCTTTTATTTACAGCTGGCGATGAAGGTTTAGAT
    GAAAAACAACTATTAGAAATATTAGATATGTCGAAAGACCAACTCGTTGAATTAATTGAA
    AATTATTCATCACATGGATTAATGATACAACGATTTGGAATGACGTATGTTTTAACGACT
    AAAAAAGAAGCGGCAACGTATATTGAACAATTAATTGAACAAAAGTCACAAATGAAATTA
    TCACAAGCAGCAATGGAAGTACTATCAATTATTGCTTATAACCAGCCATTATCAAGAAGT
    GATATTGAATTAATTCGTAGTATCAATTCAGATGGTGCAGTTAAGACATTGATTGCCAAA
    GGACTAGTTGAGGCTAAAGTGGTTAATGAACAGCGTAGCCAACAGTTAATTACTACTGAT
    TTATTTTTAAATGTATTTGGTATTTCCAATATAGAAGATTTGCCGACAACTGAAGAAGAC
    GATGAAGAAATGGATGCTTTTTTCAGTAATCTAGTCAATCAAAAAGGAGAAAATAATGAC
    TAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    543

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01588
  • symbol: SAOUHSC_01588
  • description: hypothetical protein
  • length: 180
  • theoretical pI: 4.03334
  • theoretical MW: 20235.7
  • GRAVY: -0.251667

⊟Function[edit | edit source]

  • TIGRFAM:
    Cellular processes Cellular processes Cell division segregation and condensation protein B (TIGR00281; HMM-score: 122.4)
    Genetic information processing DNA metabolism Chromosome-associated proteins segregation and condensation protein B (TIGR00281; HMM-score: 122.4)
  • TheSEED  :
    • Segregation and condensation protein B
    Cell Division and Cell Cycle Cell Division and Cell Cycle - no subcategory Two cell division clusters relating to chromosome partitioning  Segregation and condensation protein B
  • ⊞PFAM:
    HTH (CL0123) SMC_ScpB; Segregation and condensation complex subunit ScpB (PF04079; HMM-score: 144.7)
    and 3 more
    MarR_2; MarR family (PF12802; HMM-score: 16.5)
    no clan defined NYD-SP12_N; Spermatogenesis-associated, N-terminal (PF15015; HMM-score: 14.6)
    Sigma54_AID; Sigma-54 factor, Activator interacting domain (AID) (PF00309; HMM-score: 7.9)

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

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

⊟Localization[edit | edit source]

  • ⊞PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.67
    • Cytoplasmic Membrane Score: 0.01
    • Cellwall Score: 0.15
    • Extracellular Score: 0.17
    • Internal Helices: 0
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9859
    • Cytoplasmic Membrane Score: 0.0088
    • Cell wall & surface Score: 0.0004
    • Extracellular Score: 0.0049
  • ⊞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): 0.003773
    • TAT(Tat/SPI): 0.000246
    • LIPO(Sec/SPII): 0.000358
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI: 88195299 NCBI
  • RefSeq: YP_500103 NCBI
  • UniProt: Q2FY77 UniProt
  • STRING: 93061.SAOUHSC_01588 STRING

⊟Protein sequence[edit | edit source]

  • MDNHGILESLLFTAGDEGLDEKQLLEILDMSKDQLVELIENYSSHGLMIQRFGMTYVLTTKKEAATYIEQLIEQKSQMKLSQAAMEVLSIIAYNQPLSRSDIELIRSINSDGAVKTLIAKGLVEAKVVNEQRSQQLITTDLFLNVFGISNIEDLPTTEEDDEEMDAFFSNLVNQKGENND

⊟Experimental data[edit | edit source]

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

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

  • MicrobesOnline: SAOUHSC_01585 < SAOUHSC_01586 < SAOUHSC_01587 < SAOUHSC_01588 < SAOUHSC_01589
    predicted SigA promoter [4] : SAOUHSC_01585 < SAOUHSC_01586 < S638 < SAOUHSC_01587 < SAOUHSC_01588 < SAOUHSC_01589

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

  • S.aureus Expression Data Browser:  [4] 
    Expression Data Browser
    ⊟Multi-gene expression profiles



    Click on any data point to display a description of the corresponding condition!

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

  • Aureolib: no data available

⊟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. ↑ Jump up to: 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]

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=SAOUHSC_01588&oldid=66545"
  • This page was last edited on 10 March 2016, at 18:38.
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