From AureoWiki
Jump to navigation Jump to search

NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_02963
  • pan locus tag?: SAUPAN006357000
  • symbol: SAOUHSC_02963
  • pan gene symbol?: clfB
  • synonym:
  • product: clumping factor B

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_02963
  • symbol: SAOUHSC_02963
  • product: clumping factor B
  • replicon: chromosome
  • strand: -
  • coordinates: 2722968..2725601
  • length: 2634
  • essential: no 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
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    2221
    2281
    2341
    2401
    2461
    2521
    2581
    TTGAAAAAAAGAATTGATTATTTGTCGAATAAGCAGAATAAGTATTCGATTAGACGTTTT
    ACAGTAGGTACCACATCAGTAATAGTAGGGGCAACTATACTATTTGGGATAGGCAATCAT
    CAAGCACAAGCTTCAGAACAATCGAACGATACAACGCAATCTTCGAAAAATAATGCAAGT
    GCAGATTCCGAAAAAAACAATATGATAGAAACACCTCAATTAAATACAACGGCTAATGAT
    ACATCTGATATTAGTGCAAACACAAACAGTGCGAATGTAGATAGCACAACAAAACCAATG
    TCTACACAAACGAGCAATACCACTACAACAGAGCCAGCTTCAACAAATGAAACACCTCAA
    CCGACGGCAATTAAAAATCAAGCAACTGCTGCAAAAATGCAAGATCAAACTGTTCCTCAA
    GAAGCAAATTCTCAAGTAGATAATAAAACAACGAATGATGCTAATAGCATAGCAACAAAC
    AGTGAGCTTAAAAATTCTCAAACATTAGATTTACCACAATCATCACCACAAACGATTTCC
    AATGCGCAAGGAACTAGTAAACCAAGTGTTAGAACGAGAGCTGTACGTAGTTTAGCTGTT
    GCTGAACCGGTAGTAAATGCTGCTGATGCTAAAGGTACAAATGTAAATGATAAAGTTACG
    GCAAGTAATTTCAAGTTAGAAAAGACTACATTTGACCCTAATCAAAGTGGTAACACATTT
    ATGGCGGCAAATTTTACAGTGACAGATAAAGTGAAATCAGGGGATTATTTTACAGCGAAG
    TTACCAGATAGTTTAACTGGTAATGGAGACGTGGATTATTCTAATTCAAATAATACGATG
    CCAATTGCAGACATTAAAAGTACGAATGGCGATGTTGTAGCTAAAGCAACATATGATATC
    TTGACTAAGACGTATACATTTGTCTTTACAGATTATGTAAATAATAAAGAAAATATTAAC
    GGACAATTTTCATTACCTTTATTTACAGACCGAGCAAAGGCACCTAAATCAGGAACATAT
    GATGCGAATATTAATATTGCGGATGAAATGTTTAATAATAAAATTACTTATAACTATAGT
    TCGCCAATTGCAGGAATTGATAAACCAAATGGCGCGAACATTTCTTCTCAAATTATTGGT
    GTAGATACAGCTTCAGGTCAAAACACATACAAGCAAACAGTATTTGTTAACCCTAAGCAA
    CGAGTTTTAGGTAATACGTGGGTGTATATTAAAGGCTACCAAGATAAAATCGAAGAAAGT
    AGCGGTAAAGTAAGTGCTACAGATACAAAACTGAGAATTTTTGAAGTGAATGATACATCT
    AAATTATCAGATAGCTACTATGCAGATCCAAATGACTCTAACCTTAAAGAAGTAACAGAC
    CAATTTAAAAATAGAATCTATTATGAGCATCCAAATGTAGCTAGTATTAAATTTGGTGAT
    ATTACTAAAACATATGTAGTATTAGTAGAAGGGCATTACGACAATACAGGTAAGAACTTA
    AAAACTCAGGTTATTCAAGAAAATGTTGATCCTGTAACAAATAGAGACTACAGTATTTTC
    GGTTGGAATAATGAGAATGTTGTACGTTATGGTGGTGGAAGTGCTGATGGTGATTCAGCA
    GTAAATCCGAAAGACCCAACTCCAGGGCCGCCGGTTGACCCAGAACCAAGTCCAGACCCA
    GAACCAGAACCAACGCCAGATCCAGAACCAAGTCCAGACCCAGAACCGGAACCAAGCCCA
    GACCCGGATCCGGATTCGGATTCAGACAGTGACTCAGGCTCAGACAGCGACTCAGGTTCA
    GATAGCGACTCAGAATCAGATAGCGATTCGGATTCAGACAGTGATTCAGATTCAGACAGC
    GACTCAGAATCAGATAGCGACTCAGAATCAGATAGTGAGTCAGATTCAGACAGTGACTCG
    GACTCAGACAGTGATTCAGACTCAGATAGCGATTCAGACTCAGATAGCGATTCAGACTCA
    GACAGCGATTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGC
    GACTCAGACTCAGACAGCGACTCAGATTCAGATAGCGATTCAGACTCAGACAGCGACTCA
    GACTCAGACAGCGACTCAGACTCAGATAGCGACTCAGATTCAGATAGCGATTCAGACTCA
    GACAGCGACTCAGATTCAGATAGCGATTCGGACTCAGACAGCGATTCAGATTCAGACAGC
    GACTCAGACTCGGATAGCGATTCAGATTCAGATAGCGATTCGGATTCAGACAGTGATTCA
    GATTCAGACAGCGACTCAGACTCGGATAGCGACTCAGACTCAGACAGCGATTCAGACTCA
    GATAGCGACTCAGACTCGGATAGCGACTCGGATTCAGATAGCGACTCAGACTCAGATAGT
    GACTCCGATTCAAGAGTTACACCACCAAATAATGAACAGAAAGCACCATCAAATCCTAAA
    GGTGAAGTAAACCATTCTAATAAGGTATCAAAACAACACAAAACTGATGCTTTACCAGAA
    ACAGGAGATAAGAGCGAAAACACAAATGCAACTTTATTTGGTGCAATGATGGCATTATTA
    GGATCATTACTATTGTTTAGAAAACGCAAGCAAGATCATAAAGAAAAAGCGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2220
    2280
    2340
    2400
    2460
    2520
    2580
    2634

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_02963
  • symbol: SAOUHSC_02963
  • description: clumping factor B
  • length: 877
  • theoretical pI: 3.73123
  • theoretical MW: 93593.9
  • GRAVY: -1.16956

⊟Function[edit | edit source]

  • TIGRFAM:
    gram-positive signal peptide, YSIRK family (TIGR01168; HMM-score: 52)
    and 1 more
    Cell structure Cell envelope Other LPXTG cell wall anchor domain (TIGR01167; HMM-score: 28.7)
  • TheSEED  :
    • Clumping factor ClfB, fibrinogen binding protein
    Virulence, Disease and Defense Adhesion Adhesins in Staphylococcus  Clumping factor ClfB, fibrinogen binding protein
  • PFAM:
    Adhesin (CL0204) SdrG_C_C; C-terminus of bacterial fibrinogen-binding adhesin (PF10425; HMM-score: 135.7)
    and 4 more
    no clan defined YSIRK_signal; YSIRK type signal peptide (PF04650; HMM-score: 42)
    Gram_pos_anchor; LPXTG cell wall anchor motif (PF00746; HMM-score: 39.6)
    TonB_N; TonB N-terminal region (PF16031; HMM-score: 20.5)
    DUF1970; Domain of unknown function (DUF1970) (PF09301; HMM-score: 7.9)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cellwall
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 10
    • Extracellular Score: 0
    • Internal Helices: 2
  • LocateP: LPxTG Cell-wall anchored
    • Prediction by SwissProt Classification: Cell Wall
    • Pathway Prediction: Sec-(SPI)
    • Intracellular possibility: 0.17
    • Signal peptide possibility: 0.5
    • N-terminally Anchored Score: 2
    • Predicted Cleavage Site: found LPxTG motif :LPETG
  • SignalP: Signal peptide SP(Sec/SPI) length 44 aa
    • SP(Sec/SPI): 0.899149
    • TAT(Tat/SPI): 0.06812
    • LIPO(Sec/SPII): 0.003061
    • Cleavage Site: CS pos: 44-45. AQA-SE. Pr: 0.9420
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKKRIDYLSNKQNKYSIRRFTVGTTSVIVGATILFGIGNHQAQASEQSNDTTQSSKNNASADSEKNNMIETPQLNTTANDTSDISANTNSANVDSTTKPMSTQTSNTTTTEPASTNETPQPTAIKNQATAAKMQDQTVPQEANSQVDNKTTNDANSIATNSELKNSQTLDLPQSSPQTISNAQGTSKPSVRTRAVRSLAVAEPVVNAADAKGTNVNDKVTASNFKLEKTTFDPNQSGNTFMAANFTVTDKVKSGDYFTAKLPDSLTGNGDVDYSNSNNTMPIADIKSTNGDVVAKATYDILTKTYTFVFTDYVNNKENINGQFSLPLFTDRAKAPKSGTYDANINIADEMFNNKITYNYSSPIAGIDKPNGANISSQIIGVDTASGQNTYKQTVFVNPKQRVLGNTWVYIKGYQDKIEESSGKVSATDTKLRIFEVNDTSKLSDSYYADPNDSNLKEVTDQFKNRIYYEHPNVASIKFGDITKTYVVLVEGHYDNTGKNLKTQVIQENVDPVTNRDYSIFGWNNENVVRYGGGSADGDSAVNPKDPTPGPPVDPEPSPDPEPEPTPDPEPSPDPEPEPSPDPDPDSDSDSDSGSDSDSGSDSDSESDSDSDSDSDSDSDSDSESDSDSESDSESDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSRVTPPNNEQKAPSNPKGEVNHSNKVSKQHKTDALPETGDKSENTNATLFGAMMALLGSLLLFRKRKQDHKEKA

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [1] [2]
  • 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. ↑ 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)
  2. ↑ 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)
  3. ↑ 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]

T J Foster, M Höök
Surface protein adhesins of Staphylococcus aureus.
Trends Microbiol: 1998, 6(12);484-8
[PubMed:10036727] [WorldCat.org] [DOI] (P p)F M McAleese, E J Walsh, M Sieprawska, J Potempa, T J Foster
Loss of clumping factor B fibrinogen binding activity by Staphylococcus aureus involves cessation of transcription, shedding and cleavage by metalloprotease.
J Biol Chem: 2001, 276(32);29969-78
[PubMed:11399757] [WorldCat.org] [DOI] (P p)Louise M O'Brien, Evelyn J Walsh, Ruth C Massey, Sharon J Peacock, Timothy J Foster
Staphylococcus aureus clumping factor B (ClfB) promotes adherence to human type I cytokeratin 10: implications for nasal colonization.
Cell Microbiol: 2002, 4(11);759-70
[PubMed:12427098] [WorldCat.org] [DOI] (P p)Evelyn J Walsh, Louise M O'Brien, Xiaowen Liang, Magnus Hook, Timothy J Foster
Clumping factor B, a fibrinogen-binding MSCRAMM (microbial surface components recognizing adhesive matrix molecules) adhesin of Staphylococcus aureus, also binds to the tail region of type I cytokeratin 10.
J Biol Chem: 2004, 279(49);50691-9
[PubMed:15385531] [WorldCat.org] [DOI] (P p)Heiman F L Wertheim, Evelyn Walsh, Roos Choudhurry, Damian C Melles, Hélène A M Boelens, Helen Miajlovic, Henri A Verbrugh, Timothy Foster, Alex van Belkum
Key role for clumping factor B in Staphylococcus aureus nasal colonization of humans.
PLoS Med: 2008, 5(1);e17
[PubMed:18198942] [WorldCat.org] [DOI] (I p)Ting Xue, Yibo You, Fei Shang, Baolin Sun
Rot and Agr system modulate fibrinogen-binding ability mainly by regulating clfB expression in Staphylococcus aureus NCTC8325.
Med Microbiol Immunol: 2012, 201(1);81-92
[PubMed:21701848] [WorldCat.org] [DOI] (I p)

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SAOUHSC_02963&oldid=71903"