Difference between revisions of "Part:BBa K4324003:Design"

 
 
Line 7: Line 7:
  
 
===Design Notes===
 
===Design Notes===
−
The protein sequence was codon-optimised for Escherichia coli through the [https://sg.idtdna.com/CodonOpt IDT codon optimisation tool] as gBlocks Gene Fragments.
+
The protein sequence was codon-optimised for expression in '''Escherichia coli K12''' through the [https://sg.idtdna.com/CodonOpt IDT codon optimisation tool] as gBlocks® Gene Fragments, and ensured that EcoRI, XbaI, SpeI, and PstI restriction sites were not accidentally present within the CDS.
  
 +
===Source===
  
 +
This original protein sequence was taken from the '''XFP gene''' of '''Bifidobacterium animalis subsp. lactis''' (or B. lactis) (strain DSM 10140 / JCM 10602 / LMG 18314), which can be found on the [https://rest.uniprot.org/uniprotkb/Q9AEM9.fasta Uniprot database].
  
 +
Alternatively, the protein sequence is pasted below:
  
−
===Source===
+
<code>
−
 
+
MTNPVIGTPWQKLDRPVSEEAIEGMDKYWRVANYMSIGQIYLRSNPLMKEPFTRDDVKHR
−
XFP gene from Bifidobacterium animalis subsp. lactis (strain DSM 10140 / JCM 10602 / LMG 18314)
+
LVGHWGTTPGLNFLLAHINRLIADHQQNTVFIMGPGHGGPAGTAQSYIDGTYTEYYPNIT
 +
KDEAGLQKFFRQFSYPGGIPSHFAPETPGSIHEGGELGYALSHAYGAIMDNPSLFVPCII
 +
GDGEAETGPLATGWQSNKLVNPRTDGIVLPILHLNGYKIANPTILARISDEELHDFFRGM
 +
GYHPYEFVAGFDNEDHLSIHRRFAELFETIFDEICDIKAAAQTDDMTRPFYPMLIFRTPK
 +
GWTCPKFIDGKKTEGSWRAHQVPLASARDTEAHFEVLKGWMESYKPEELFNADGSIKEDV
 +
TAFMPKGELRIGANPNANGGRIREDLKLPELDQYEITGVKEYGHGWGQVEAPRSLGAYCR
 +
DIIKNNPDSFRVFGPDETASNRLNATYEVTKKQWDNGYLSALVDENMAVTGQVVEQLSEH
 +
QCEGFLEAYLLTGRHGIWSSYESFVHVIDSMLNQHAKWLEATVREIPWRKPISSVNLLVS
 +
SHVWRQDHNGFSHQDPGVTSVLLNKTFNNDHVTNIYFATDANMLLAIAEKCFKSTNKINA
 +
IFAGKQPAATWITLDEVRAELEAGAAEWKWASNAKSNDEVQVVLAAAGDVPTQEIMAASD
 +
ALNKMGIKFKVVNVVDLIKLQSSKENDEAMSDEDFADLFTADKPVLFAYHSYAQDVRGLI
 +
YDRPNHDNFTVVGYKEQGSTTTPFDMVRVNDMDRYALQAKALELIDADKYADKINELNEF<br>
 +
RKTAFQFAVDNGYDIPEFTDWVYPDVKVDETSMLSATAATAGDNE
 +
</code>
  
 
===References===
 
===References===
 +
1. https://www.uniprot.org/uniprotkb/Q9AEM9/entry<br>

Latest revision as of 14:15, 12 October 2022


lacPO-RBS-PK-T1


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 210
    Illegal BamHI site found at 507
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 1912
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

The protein sequence was codon-optimised for expression in Escherichia coli K12 through the IDT codon optimisation tool as gBlocks® Gene Fragments, and ensured that EcoRI, XbaI, SpeI, and PstI restriction sites were not accidentally present within the CDS.

Source

This original protein sequence was taken from the XFP gene of Bifidobacterium animalis subsp. lactis (or B. lactis) (strain DSM 10140 / JCM 10602 / LMG 18314), which can be found on the Uniprot database.

Alternatively, the protein sequence is pasted below:

MTNPVIGTPWQKLDRPVSEEAIEGMDKYWRVANYMSIGQIYLRSNPLMKEPFTRDDVKHR LVGHWGTTPGLNFLLAHINRLIADHQQNTVFIMGPGHGGPAGTAQSYIDGTYTEYYPNIT KDEAGLQKFFRQFSYPGGIPSHFAPETPGSIHEGGELGYALSHAYGAIMDNPSLFVPCII GDGEAETGPLATGWQSNKLVNPRTDGIVLPILHLNGYKIANPTILARISDEELHDFFRGM GYHPYEFVAGFDNEDHLSIHRRFAELFETIFDEICDIKAAAQTDDMTRPFYPMLIFRTPK GWTCPKFIDGKKTEGSWRAHQVPLASARDTEAHFEVLKGWMESYKPEELFNADGSIKEDV TAFMPKGELRIGANPNANGGRIREDLKLPELDQYEITGVKEYGHGWGQVEAPRSLGAYCR DIIKNNPDSFRVFGPDETASNRLNATYEVTKKQWDNGYLSALVDENMAVTGQVVEQLSEH QCEGFLEAYLLTGRHGIWSSYESFVHVIDSMLNQHAKWLEATVREIPWRKPISSVNLLVS SHVWRQDHNGFSHQDPGVTSVLLNKTFNNDHVTNIYFATDANMLLAIAEKCFKSTNKINA IFAGKQPAATWITLDEVRAELEAGAAEWKWASNAKSNDEVQVVLAAAGDVPTQEIMAASD ALNKMGIKFKVVNVVDLIKLQSSKENDEAMSDEDFADLFTADKPVLFAYHSYAQDVRGLI YDRPNHDNFTVVGYKEQGSTTTPFDMVRVNDMDRYALQAKALELIDADKYADKINELNEF
RKTAFQFAVDNGYDIPEFTDWVYPDVKVDETSMLSATAATAGDNE

References

1. https://www.uniprot.org/uniprotkb/Q9AEM9/entry