Difference between revisions of "Part:BBa K1475001:Design"

 
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===Design Notes===
 
===Design Notes===
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The WHO advised amino acid composition was written down and the sequence was then shuffled using (LINK). A 3*FLAG-tag was then added by remiving the respective codons and adding them to the end of the protein to keep the right composition of amino acids.
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The amino acid sequence has been designed by first combining the number of triplets needed to comply with the World Health Organization recommendations for indispensable amino acids within 0.2% [1]. Then the sequence was scrambled until no relation to any known toxic proteins or virulence factors could be found, this was done by searching the coding sequence using Phyre2 [6].
  
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[[File:2014SDUdis_to_non-dis_ratio.png]]
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<br>
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The figure shows the ratio of indispensable to dispensable amino acids to the human metabolism contained in OneProt in comparison to the ratio recommended by the World Health Organization (WHO). [1]
  
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[[File:2014SDUnon-dis_ratio.png]]<br>
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The figure shows the ratio of indispensible amino acids in OneProt compared to the ratio recommended by the World Health Organization (WHO). [1]
  
 
===Source===
 
===Source===
  
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The sequence is based on WHO guidelines for amounts of amino acids needed in a normal human.
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The sequence is based on WHO guidelines for ratios of amino acids needed in a normal human diet. [1]
  
 
===References===
 
===References===
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1. WHO/FAO/UNU Expert Consultation: Protein and Amino Acid Requirements in Human Nutrition. United Nations University, 2002. No. 935, p. 164. http://whqlibdoc.who.int/trs/who_trs_935_eng.pdf
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<br>
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6. (Kelley L.A. and Sternberg M.J.E., Protein structure prediction on the web: a case study using the Phyre server. Nature Protocols 4, 2009, p. 363 - 371. http://www.sbg.bio.ic.ac.uk/phyre2/html/nprot.2009.2.pdf)

Latest revision as of 07:03, 15 October 2014

OneProt coding region


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

The amino acid sequence has been designed by first combining the number of triplets needed to comply with the World Health Organization recommendations for indispensable amino acids within 0.2% [1]. Then the sequence was scrambled until no relation to any known toxic proteins or virulence factors could be found, this was done by searching the coding sequence using Phyre2 [6].

2014SDUdis to non-dis ratio.png
The figure shows the ratio of indispensable to dispensable amino acids to the human metabolism contained in OneProt in comparison to the ratio recommended by the World Health Organization (WHO). [1]

2014SDUnon-dis ratio.png
The figure shows the ratio of indispensible amino acids in OneProt compared to the ratio recommended by the World Health Organization (WHO). [1]

Source

The sequence is based on WHO guidelines for ratios of amino acids needed in a normal human diet. [1]

References

1. WHO/FAO/UNU Expert Consultation: Protein and Amino Acid Requirements in Human Nutrition. United Nations University, 2002. No. 935, p. 164. http://whqlibdoc.who.int/trs/who_trs_935_eng.pdf
6. (Kelley L.A. and Sternberg M.J.E., Protein structure prediction on the web: a case study using the Phyre server. Nature Protocols 4, 2009, p. 363 - 371. http://www.sbg.bio.ic.ac.uk/phyre2/html/nprot.2009.2.pdf)