Difference between revisions of "Part:BBa K215200"

 
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<partinfo>BBa_K215200 short</partinfo>
 
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The design process would be:
 
The design process would be:
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1.  Start with the XbaI site: 5'-TCTAGA-3'
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# Start with the XbaI site: 5'-TCTAGA-3'
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2.  Add ~20bp of the gene immediately after the XbaI site, starting _after_ the start codon (atg), and try to end on a G or C: 5'-TCTAGAcgtaaaggagaagaacttt-3' for E0040 from above.  These ~20bp will determine the melting temperature for the primer.
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# Add ~20bp of the gene immediately after the XbaI site, starting _after_ the start codon (atg), and try to end on a G or C: 5'-TCTAGAcgtaaaggagaagaacttt-3' for E0040 from above.  These ~20bp will determine the melting temperature for the primer.
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3.  Add 6-8 random nucleotides at the start.  Try to balance out the primer to ~%50 g&c to a&t: 5'-cgggcTCTAGAcgtaaaggagaagaacttt-3'
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# Add 6-8 random nucleotides at the start.  Try to balance out the primer to ~%50 g&c to a&t: 5'-cgggcTCTAGAcgtaaaggagaagaacttt-3'
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4.  Tweak the number of nucleotides until the melting point roughly matches that of Vr.
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# Tweak the number of nucleotides until the melting point roughly matches that of Vr.
  
 
Then to add the gene to the construct, again assuming the gene is a biobrick with standard suffix:
 
Then to add the gene to the construct, again assuming the gene is a biobrick with standard suffix:
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1.  PCR with the designed forward primer and Vr
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# PCR with the designed forward primer and Vr
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2.  Then run the PCR product in a digest with XbaI and PstI, and digest this part (the display construct) with NheI and PstI.  The XbaI site has a sticky end that binds with NheI.
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# Then run the PCR product in a digest with XbaI and PstI, and digest this part (the display construct) with NheI and PstI.  The XbaI site has a sticky end that binds with NheI.
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3.  Standard ligation and transformation.
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# Standard ligation and transformation.
  
 
<!-- Add more about the biology of this part here
 
<!-- Add more about the biology of this part here

Revision as of 03:21, 1 October 2009

Generic Surface Display Construct: IPTG Inducible Lpp + 1tmr OmpA + NheI Site

This is a generic surface display construct that displays a protein with the OmpA surface display system as described in [cite].

To insert a gene, you will need to design a primer that removes the start codon and adds a XbaI site that keeps the rest of the gene in frame with OmpA. This assumes that the gene is a biobrick with the standard suffix following the gene. If you are creating the gene from scratch, biobrick it then follow this guide so that there is the standard suffix following the gene.

For example, assume our gene (E0040) starts with: 5'-atgcgtaaaggagaagaacttt...-3'

The design process would be:

  1. Start with the XbaI site: 5'-TCTAGA-3'
  2. Add ~20bp of the gene immediately after the XbaI site, starting _after_ the start codon (atg), and try to end on a G or C: 5'-TCTAGAcgtaaaggagaagaacttt-3' for E0040 from above. These ~20bp will determine the melting temperature for the primer.
  3. Add 6-8 random nucleotides at the start. Try to balance out the primer to ~%50 g&c to a&t: 5'-cgggcTCTAGAcgtaaaggagaagaacttt-3'
  4. Tweak the number of nucleotides until the melting point roughly matches that of Vr.

Then to add the gene to the construct, again assuming the gene is a biobrick with standard suffix:

  1. PCR with the designed forward primer and Vr
  2. Then run the PCR product in a digest with XbaI and PstI, and digest this part (the display construct) with NheI and PstI. The XbaI site has a sticky end that binds with NheI.
  3. Standard ligation and transformation.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 292
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]