Difference between revisions of "Part:BBa K2170050:Design"

 
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<partinfo>BBa_K2170050 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K2170050 SequenceAndFeatures</partinfo>
  
 +
<br>'''Keywords:'''
 +
<!--These keywords are necessary to find your part using a fulltext sarch.-->
 +
<!--keyword_1, keyword_2, keyword_3, keyword_4, keyword_5-->
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 +
<br>'''Abbreviations:'''
 +
<!--*used_abbreviation_1 = full_name_of_used_abbreviations_1-->
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<!--*used_abbreviation_2 = full_name_of_used_abbreviations_2-->
  
 
===Design Notes===
 
===Design Notes===
−
none
 
  
 +
'''Related BioBrick:'''
 +
*Related BioBricks:
 +
[https://parts.igem.org/wiki/index.php?title=Part:BBa_K2170052 BBa_K2170052: Secretory prokaryotic biotin binding receptor with single chain avidin]<br>
 +
[https://parts.igem.org/wiki/index.php?title=Part:BBa_K2170050 BBa_K2170050: Secretory prokaryotic biotin binding receptor with enhanced monomeric avidin]<br>
 +
'''Cloning details:'''<br>
 +
*Designed in RFC10
 +
<!--*Mutation C889G to delete XbaI restriction site-->
  
 +
 +
'''Quality control measures:'''<br>
 +
*Test digestion using EcoRI & PstI
 +
*Sequencing using primer VF2 & VR
 +
*Part was partly sequenced/Part was totally sequenced
 +
 +
'''Backbone:'''<br>
 +
*Backbone name: pSB1C3
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*Resistance: Cp
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*Copynumber: high
 +
 +
'''Protein coding:'''<br>
 +
*Protein: Secretory prokaryotic biotin presenting receptor with biotin acceptor peptide [Nucleotide 1030 to 2652]-->
 +
*Tag: internal A3C5 Tag
 +
 +
'''Enzymatic activity:'''
 +
* NanoLuc
 +
 +
'''Cytotoxicity:'''<br>
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*none
 +
 +
'''Safety notes:'''<br>
 +
Known and anticipated sefety issues: none
 +
Known and anticipated security issues: none
  
 
===Source===
 
===Source===
  
−
assembly
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'''Source:'''<br>
 +
 
 +
*Preexisting BioBrick BBa_I739001; BBa_B0015; BBa_K1159001
 +
*Parts Synthesized by IDT
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*Professor Dr. Arne Skerra (Chair biological chemistry of TUM)
 +
 
 +
<!--'''Forward Primer:'''<br><code>5'- ??? - 3'</code><br>-->
 +
<!--'''Reverse Primer:'''<br><code>5'- ??? - 3'</code><br>-->
 +
 
 +
'''Organism:'''<br>
 +
Genesequence derived from ''Escherichia coli''
 +
<!--*Codonoptimized for ''?organism_name?''-->
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*Designed for the following Chassis: procaryotic cells
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<!--*Statement about functionality in other chassis.-->
 +
 
 +
<!--Thank you very much for using BBF RFC 82 to describe the present BioBrick. If you have any remarks or recommendations concerning this RFC we would highly appreciate to get your feedback on: []-->
  
 
===References===
 
===References===
 +
<!-- Here you find templates to insert references to literature and different databases-->
 +
 +
'''Literature references:'''<br>
 +
 +
1. [http://jcb.rupress.org/content/108/2/229.short Kozak, M. (1989). The scanning model for translation: an update. The Journal of cell biology, 108(2), 229-241.]<br>
 +
2. [http://journals.plos.org/plosone/article?id=10.1371/journal.pone.000439 Kredel, S., Oswald, F., Nienhaus, K., Deuschle, K., Röcker, C., Wolff, M., ... & Wiedenmann, J. (2009). mRuby, a bright monomeric red fluorescent protein for labeling of subcellular structures. PloS one, 4(2), e4391.]<br>
 +
3. [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4754705/ Bajar, B. T., Wang, E. S., Lam, A. J., Kim, B. B., Jacobs, C. L., Howe, E. S., ... & Chu, J. (2016). Improving brightness and photostability of green and red fluorescent proteins for live cell imaging and FRET reporting. Scientific reports, 6.]<br>
 +
4. [http://www.nature.com/nprot/journal/v2/n6/abs/nprot.2007.209.html Schmidt, T. G., & Skerra, A. (2007). The Strep-tag system for one-step purification and high-affinity detection or capturing of proteins. Nature protocols, 2(6), 1528-1535.]<br>
 +
 +
'''Database references:'''<br>
 +
<!--*[http://www.ncbi.nlm.nih.gov/nuccore/?accessNr? '''GenBank''': ?title?]-->
 +
<!--*[http://www.ebi.ac.uk/interpro/IEntry?ac=?accessNr? '''Interpro''': ?title?]-->
 +
<!--*[http://www.uniprot.org/uniprot/?accessNr? '''Uniprot''': ?title?]-->
 +
<!--*[http://pfam.sanger.ac.uk/family/?accessNr? '''Pfam:''' ?title?]-->
 +
<!--*[http://www.rcsb.org/pdb/explore/explore.do?structureId=?accessNR? '''PDB:''' ?tile?]-->
 +
<!--*[http://www.brenda-enzymes.info/php/result_flat.php4?ecno=?accessNr? '''Branda:''' ?title?]-->

Latest revision as of 16:31, 19 October 2016


Secretory prokaryotic biotin binding receptor with enhanced monomeric avidin


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 7
    Illegal NheI site found at 30
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 2448
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 889


Keywords:


Abbreviations:

Design Notes

Related BioBrick:

  • Related BioBricks:

BBa_K2170052: Secretory prokaryotic biotin binding receptor with single chain avidin
BBa_K2170050: Secretory prokaryotic biotin binding receptor with enhanced monomeric avidin
Cloning details:

  • Designed in RFC10


Quality control measures:

  • Test digestion using EcoRI & PstI
  • Sequencing using primer VF2 & VR
  • Part was partly sequenced/Part was totally sequenced

Backbone:

  • Backbone name: pSB1C3
  • Resistance: Cp
  • Copynumber: high

Protein coding:

  • Protein: Secretory prokaryotic biotin presenting receptor with biotin acceptor peptide [Nucleotide 1030 to 2652]-->
  • Tag: internal A3C5 Tag

Enzymatic activity:

  • NanoLuc

Cytotoxicity:

  • none

Safety notes:
Known and anticipated sefety issues: none Known and anticipated security issues: none

Source

Source:

  • Preexisting BioBrick BBa_I739001; BBa_B0015; BBa_K1159001
  • Parts Synthesized by IDT
  • Professor Dr. Arne Skerra (Chair biological chemistry of TUM)


Organism:
Genesequence derived from Escherichia coli

  • Designed for the following Chassis: procaryotic cells


References

Literature references:

1. [http://jcb.rupress.org/content/108/2/229.short Kozak, M. (1989). The scanning model for translation: an update. The Journal of cell biology, 108(2), 229-241.]
2. [http://journals.plos.org/plosone/article?id=10.1371/journal.pone.000439 Kredel, S., Oswald, F., Nienhaus, K., Deuschle, K., Röcker, C., Wolff, M., ... & Wiedenmann, J. (2009). mRuby, a bright monomeric red fluorescent protein for labeling of subcellular structures. PloS one, 4(2), e4391.]
3. Bajar, B. T., Wang, E. S., Lam, A. J., Kim, B. B., Jacobs, C. L., Howe, E. S., ... & Chu, J. (2016). Improving brightness and photostability of green and red fluorescent proteins for live cell imaging and FRET reporting. Scientific reports, 6.
4. [http://www.nature.com/nprot/journal/v2/n6/abs/nprot.2007.209.html Schmidt, T. G., & Skerra, A. (2007). The Strep-tag system for one-step purification and high-affinity detection or capturing of proteins. Nature protocols, 2(6), 1528-1535.]

Database references: