Difference between revisions of "Part:BBa K1351000:Design"
 
Line 6: Line 6:
  
 
===Design Notes===
 
===Design Notes===
 +
For generation of the part's nucleotide sequence, the amino acid sequence of the peptide (derived from Barbu ''et. al.'', 2009) was reverse transcribed with regard to the codon usage of ''Bacillus subtilis''. <br>
 +
 
Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.
 
Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.
  
Line 17: Line 19:
  
 
===References===
 
===References===
 +
Barbu EM, Ganesh VK, Gurusiddappa S, Mackenzie RC, Foster TJ, et al. (2010) b-Neurexin Is a Ligand for the Staphylococcus aureus MSCRAMM SdrC. PLoS
 +
Pathog 6(1): e1000726. doi:10.1371/journal.ppat.1000726
 +
[http://www.ncbi.nlm.nih.gov/pubmed/20090838 PubMed]

Latest revision as of 23:17, 15 September 2014

beta-Neurexin-derived peptide binding to S. aureus adhesin SdrC


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

For generation of the part's nucleotide sequence, the amino acid sequence of the peptide (derived from Barbu et. al., 2009) was reverse transcribed with regard to the codon usage of Bacillus subtilis.

Oligos were designed as precut by EcoRI and PstI to shorten the synthesized fragments and to simplify the cloning into pSB1C3.


Source

The part was generated by annealing of artificially synthesized oligonucletides:
Nrx1b_ENX_SD_Ngo_precutEP_fwd: AATTCgcggccgctTCTAGAgtaaggaggaaGCCGGCATG GCGCACCACATTCACCACTTTCACGGATCA ACCGGTtaatACTAGTagcggccgCTGCA
Nrx1b_SNP_Age_precutEP_rev: GcggccgctACTAGTattaACCGGT TGATCCGTGAAAGTGGTGAATGTGGTGCGC CATGCCGGCttcctccttacTCTAGAagcggccgcG

References

Barbu EM, Ganesh VK, Gurusiddappa S, Mackenzie RC, Foster TJ, et al. (2010) b-Neurexin Is a Ligand for the Staphylococcus aureus MSCRAMM SdrC. PLoS Pathog 6(1): e1000726. doi:10.1371/journal.ppat.1000726 [http://www.ncbi.nlm.nih.gov/pubmed/20090838 PubMed]