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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01079
  • pan locus tag?: SAUPAN003358000
  • symbol: SAOUHSC_01079
  • pan gene symbol?: isdB
  • synonym:
  • product: neurofilament protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01079
  • symbol: SAOUHSC_01079
  • product: neurofilament protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1042227..1044164
  • length: 1938
  • 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
    ATGAACAAACAGCAAAAAGAATTTAAATCATTTTATTCAATTAGAAAGTCATCACTAGGC
    GTTGCATCTGTAGCAATTAGTACACTTTTATTATTAATGTCAAATGGCGAAGCACAAGCA
    GCAGCTGAAGAAACAGGTGGTACAAATACAGAAGCACAACCAAAAACTGAAGCAGTTGCA
    AGTCCAACAACAACATCTGAAAAAGCTCCAGAAACTAAACCAGTAGCTAATGCTGTCTCA
    GTATCTAATAAAGAAGTTGAGGCCCCTACTTCTGAAACAAAAGAAGCTAAAGAAGTTAAA
    GAAGTTAAAGCCCCTAAGGAAACAAAAGAAGTTAAACCAGCAGCAAAAGCCACTAACAAT
    ACATATCCTATTTTGAATCAGGAACTTAGAGAAGCGATTAAAAACCCTGCAATAAAAGAC
    AAAGATCATAGCGCACCAAACTCTCGTCCAATTGATTTTGAAATGAAAAAGAAAGATGGA
    ACTCAACAGTTTTATCATTATGCAAGTTCTGTTAAACCTGCTAGAGTTATTTTCACTGAT
    TCAAAACCAGAAATTGAATTAGGATTACAATCAGGTCAATTTTGGAGAAAATTTGAAGTT
    TATGAAGGTGACAAAAAGTTGCCAATTAAATTAGTATCATACGATACTGTTAAAGATTAT
    GCTTACATTCGCTTCTCTGTATCAAACGGAACAAAAGCTGTTAAAATTGTTAGTTCAACA
    CACTTCAATAACAAAGAAGAAAAATACGATTACACATTAATGGAATTCGCACAACCAATT
    TATAACAGTGCAGATAAATTCAAAACTGAAGAAGATTATAAAGCTGAAAAATTATTAGCG
    CCATATAAAAAAGCGAAAACACTAGAAAGACAAGTTTATGAATTAAATAAAATTCAAGAT
    AAACTTCCTGAAAAATTAAAGGCTGAGTACAAGAAGAAATTAGAGGATACAAAGAAAGCT
    TTAGATGAGCAAGTGAAATCAGCTATTACTGAATTCCAAAATGTACAACCAACAAATGAA
    AAAATGACTGATTTACAAGATACAAAATATGTTGTTTATGAAAGTGTTGAGAATAACGAA
    TCTATGATGGATACTTTTGTTAAACACCCTATTAAAACAGGTATGCTTAACGGCAAAAAA
    TATATGGTCATGGAAACTACTAATGACGATTACTGGAAAGATTTCATGGTTGAAGGTCAA
    CGTGTTAGAACTATAAGCAAAGATGCTAAAAATAATACTAGAACAATTATTTTCCCATAT
    GTTGAAGGTAAAACTCTATATGATGCTATCGTTAAAGTTCACGTAAAAACGATTGATTAT
    GATGGACAATACCATGTCAGAATCGTTGATAAAGAAGCATTTACAAAAGCCAATACCGAT
    AAATCTAACAAAAAAGAACAACAAGATAACTCAGCTAAGAAGGAAGCTACTCCAGCTACG
    CCTAGCAAACCAACACCATCACCTGTTGAAAAAGAATCACAAAAACAAGACAGCCAAAAA
    GATGACAATAAACAATTACCAAGTGTTGAAAAAGAAAATGACGCATCTAGTGAGTCAGGT
    AAAGACAAAACGCCTGCTACAAAACCAACTAAAGGTGAAGTAGAATCAAGTAGTACAACT
    CCAACTAAGGTAGTATCTACGACTCAAAATGTTGCAAAACCAACAACTGCTTCATCAAAA
    ACAACAAAAGATGTTGTTCAAACTTCAGCAGGTTCTAGCGAAGCAAAAGATAGTGCTCCA
    TTACAAAAAGCAAACATTAAAAACACAAATGATGGACACACTCAAAGCCAAAACAATAAA
    AATACACAAGAAAATAAAGCAAAATCATTACCACAAACTGGTGAAGAATCAAATAAAGAT
    ATGACATTACCATTAATGGCATTATTAGCTTTAAGTAGCATCGTTGCATTCGTATTACCT
    AGAAAACGTAAAAACTAA
    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
    1938

⊟Protein[edit | edit source]

Protein Data Bank: 5D1Q
Protein Data Bank: 5D1X
Protein Data Bank: 5D1Z

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01079
  • symbol: SAOUHSC_01079
  • description: neurofilament protein
  • length: 645
  • theoretical pI: 9.6043
  • theoretical MW: 72191.7
  • GRAVY: -0.943101

⊟Function[edit | edit source]

  • TIGRFAM:
    heme uptake protein IsdB (TIGR03657; HMM-score: 1483.3)
    and 4 more
    haptoglobin-binding heme uptake protein HarA (TIGR03658; HMM-score: 521.9)
    heme uptake protein IsdC (TIGR03656; HMM-score: 41.9)
    gram-positive signal peptide, YSIRK family (TIGR01168; HMM-score: 39)
    Cell structure Cell envelope Other LPXTG cell wall anchor domain (TIGR01167; HMM-score: 18.2)
  • TheSEED  :
    • Cell surface receptor IsdB for hemoglobin and hemoglobin-haptoglobin complexes
    Iron acquisition and metabolism Iron acquisition and metabolism - no subcategory Heme, hemin uptake and utilization systems in GramPositives  Cell surface receptor IsdB for hemoglobin and hemoglobin-haptoglobin complexes
  • PFAM:
    no clan defined NEAT; Iron Transport-associated domain (PF05031; HMM-score: 94)
    and 3 more
    YSIRK_signal; YSIRK type signal peptide (PF04650; HMM-score: 34.7)
    Gram_pos_anchor; LPXTG cell wall anchor motif (PF00746; HMM-score: 32.9)
    Proton_antipo_C; NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus (PF01010; HMM-score: 11.7)

⊟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
    • Signal peptide possibility: 1
    • N-terminally Anchored Score: -2
    • Predicted Cleavage Site: found LPxTG motif :LPQTG
  • SignalP: Signal peptide SP(Sec/SPI) length 40 aa
    • SP(Sec/SPI): 0.958209
    • TAT(Tat/SPI): 0.037585
    • LIPO(Sec/SPII): 0.001797
    • Cleavage Site: CS pos: 40-41. AQA-AA. Pr: 0.6565
  • predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MNKQQKEFKSFYSIRKSSLGVASVAISTLLLLMSNGEAQAAAEETGGTNTEAQPKTEAVASPTTTSEKAPETKPVANAVSVSNKEVEAPTSETKEAKEVKEVKAPKETKEVKPAAKATNNTYPILNQELREAIKNPAIKDKDHSAPNSRPIDFEMKKKDGTQQFYHYASSVKPARVIFTDSKPEIELGLQSGQFWRKFEVYEGDKKLPIKLVSYDTVKDYAYIRFSVSNGTKAVKIVSSTHFNNKEEKYDYTLMEFAQPIYNSADKFKTEEDYKAEKLLAPYKKAKTLERQVYELNKIQDKLPEKLKAEYKKKLEDTKKALDEQVKSAITEFQNVQPTNEKMTDLQDTKYVVYESVENNESMMDTFVKHPIKTGMLNGKKYMVMETTNDDYWKDFMVEGQRVRTISKDAKNNTRTIIFPYVEGKTLYDAIVKVHVKTIDYDGQYHVRIVDKEAFTKANTDKSNKKEQQDNSAKKEATPATPSKPTPSPVEKESQKQDSQKDDNKQLPSVEKENDASSESGKDKTPATKPTKGEVESSSTTPTKVVSTTQNVAKPTTASSKTTKDVVQTSAGSSEAKDSAPLQKANIKNTNDGHTQSQNNKNTQENKAKSLPQTGEESNKDMTLPLMALLALSSIVAFVLPRKRKN

⊟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: Fur* (repression) regulon
    Fur*(TF)important in Iron homeostasis; RegPrecise 

⊟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]

Sarkis K Mazmanian, Hung Ton-That, Kenneth Su, Olaf Schneewind
An iron-regulated sortase anchors a class of surface protein during Staphylococcus aureus pathogenesis.
Proc Natl Acad Sci U S A: 2002, 99(4);2293-8
[PubMed:11830639] [WorldCat.org] [DOI] (P p)John M Taylor, David E Heinrichs
Transferrin binding in Staphylococcus aureus: involvement of a cell wall-anchored protein.
Mol Microbiol: 2002, 43(6);1603-14
[PubMed:11952908] [WorldCat.org] [DOI] (P p)Julie A Morrissey, Alan Cockayne, Jane Hammacott, Keith Bishop, Amy Denman-Johnson, Philip J Hill, Paul Williams
Conservation, surface exposure, and in vivo expression of the Frp family of iron-regulated cell wall proteins in Staphylococcus aureus.
Infect Immun: 2002, 70(5);2399-407
[PubMed:11953376] [WorldCat.org] [DOI] (P p)

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