Difference between revisions of "Part:BBa K2273114:Design"

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Sites of restriction enzymes generating compatible overhangs are indicated by sharing one color. (<span style="color:blue">EcoRI</span> and <span style="color:blue">PstI</span> are marked in blue, <span style="color:green">NotI</span> in green, <span style="color:red">XbaI</span> and <span style="color:red">SpeI</span> in red, <span style="color:orange">AgeI</span> and <span style="color:orange">NgoMIV</span> in orange)
 
Sites of restriction enzymes generating compatible overhangs are indicated by sharing one color. (<span style="color:blue">EcoRI</span> and <span style="color:blue">PstI</span> are marked in blue, <span style="color:green">NotI</span> in green, <span style="color:red">XbaI</span> and <span style="color:red">SpeI</span> in red, <span style="color:orange">AgeI</span> and <span style="color:orange">NgoMIV</span> in orange)
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Primers used for amplification:
 
Primers used for amplification:
−
Forward Primer containing RFC25 prefix (shown in small letters): 5`-gatcgaattccgcggccgcttctagatCAGAGGAGGCCTGATGgccggcAAGTTGAAAACTAAAGCGTCAATAA-3`
+
 
−
Revers Primer containing RFC25 suffix (shown in small letters): 5`-gatcctgcagcggccgctactagtaTTAaccggtTTTGAGATCGTTAAGGACGAC-3`
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Forward Primer containing RFC25 prefix (shown in small letters):
 +
 
 +
5`-gatcgaattccgcggccgcttctagatCAGAGGAGGCCTGATGgccggcAAGTTGAAAACTAAAGCGTCAATAA-3`
 +
Revers Primer containing RFC25 suffix (shown in small letters):
 +
 
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5`-gatcctgcagcggccgctactagtaTTAaccggtTTTGAGATCGTTAAGGACGAC-3`
  
  

Revision as of 15:47, 3 October 2017


Beta-lactamase encoding gene penP found in B. subtilis


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 penP gene was amplified from the B. subtilis W168 genome sequence using primers with RFC25 restriction site overhangs to enable translational fusions for localisation studies.

Prefix with EcoRI, NotI, XbaI, RBS, spacer sequence, Start Codon and NgoMIV GAATTCGCGGCCGCTTCTAGAAGGAGGTGTCAAAATGGCCGGC
Suffix with AgeI, Stop Codon, SpeI, NotI and PstI ACCGGTTAAACTAGTAGCGGCCGCTGCAGA

Sites of restriction enzymes generating compatible overhangs are indicated by sharing one color. (EcoRI and PstI are marked in blue, NotI in green, XbaI and SpeI in red, AgeI and NgoMIV in orange)


Primers used for amplification:

Forward Primer containing RFC25 prefix (shown in small letters):

5`-gatcgaattccgcggccgcttctagatCAGAGGAGGCCTGATGgccggcAAGTTGAAAACTAAAGCGTCAATAA-3` Revers Primer containing RFC25 suffix (shown in small letters):

5`-gatcctgcagcggccgctactagtaTTAaccggtTTTGAGATCGTTAAGGACGAC-3`


Source

This part sequence was derived from the Bacillus subtilis W168 genome sequence.


References

[http://www.subtiwiki.uni-goettingen.de/v3/gene/view/713BAB7190E1F86C55103049B29072F00E0DFFB3]

[http://www.uniprot.org/uniprot/P39824]

Marta Toth et al. (2015) Class D Beta-Lactamases Do Exist in Gram-Positive Bacteria. Nature Chemical Biology (12): 9-14.