Difference between revisions of "Part:BBa K5036029"
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<p class=MsoNormal align=center style='text-align:left;border:none;width:98% ;justify-content:center;'><span | <p class=MsoNormal align=center style='text-align:left;border:none;width:98% ;justify-content:center;'><span | ||
lang=EN style='padding-bottom:30px;font-size:11.0pt;line-height:115%'>The interaction between the chain composed of VEGFR1 as an external domain and Cdcas9 as an internal domain with VEGFA yields ΔG of -11.2 kcal mol-1 | lang=EN style='padding-bottom:30px;font-size:11.0pt;line-height:115%'>The interaction between the chain composed of VEGFR1 as an external domain and Cdcas9 as an internal domain with VEGFA yields ΔG of -11.2 kcal mol-1 | ||
+ | . </span></p></div></html> | ||
+ | |||
+ | Then we have made a comparison between the four receptor chain variants’ binding stability with VEGFA. | ||
+ | <html><div align="center"style="border:solid #17252A; width:100%;float:center;"><img style=" max-width:850px; | ||
+ | width:75%; | ||
+ | height:auto; | ||
+ | position: relative; | ||
+ | top: 50%; | ||
+ | left: 35%; | ||
+ | transform: translate( -50%); | ||
+ | padding-bottom:25px; | ||
+ | padding-top:25px; | ||
+ | "src="https://static.igem.wiki/teams/5036/part-software/single-chain-complex.png | ||
+ | "> | ||
+ | <p class=MsoNormal align=center style='text-align:left;border:none;width:98% ;justify-content:center;'><span | ||
+ | lang=EN style='padding-bottom:30px;font-size:11.0pt;line-height:115%'>This figure shows that VEGFR2Cdcas-VEGFA complex has the highest stability among other variants and VEGFR1NdCas9-VEGFA complex has the lowest stability among other variants | ||
. </span></p></div></html> | . </span></p></div></html> | ||
Revision as of 07:33, 25 September 2024
dCas9(C)_NLS-Syn-VEGFR-1 (VEGF-R1, C-TEV, NLS, TCS(Q,L), HA,dCas9(C),VP64,GFP)
Part Description
In our first receptor chain, we've engineered a system that responds to tissue injury. An external domain, VEGF-R1, is attached to an internal domain composed of C terminal domain of TEV protease, a nuclear localization signal (NLS), a TEV cleavage site(TCS(Q,L)), and dCas9(C) which is linked to transcription activator VP64
Usage
this is our receptor's first chain. our receptor is activated after binding of VEGF to the external domain which is designed to attach specifically to it. after activation the two domains of TEV dimerizes forming catalytically active TEV protease which will cleave the two chains at TCS. upon cleavage of the two chains the two domains of dCas9 dimerize and is released attached to transcription activator to be guided to its direction
This figure illustrates variant of our receptor's first chain where TCS (Q, L) is to it.
Software Characterization
we had the chance to match the external domains with different internal domain components to select single suitable receptor chain. The whole chain affinity is affected by the internal domain, thus we had to try VEGFR1Cdcas with VEGFA:
VEGFR1Cdcas-VEGFA
The interaction between the chain composed of VEGFR1 as an external domain and Cdcas9 as an internal domain with VEGFA yields ΔG of -11.2 kcal mol-1 .
Then we have made a comparison between the four receptor chain variants’ binding stability with VEGFA.
This figure shows that VEGFR2Cdcas-VEGFA complex has the highest stability among other variants and VEGFR1NdCas9-VEGFA complex has the lowest stability among other variants .
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12INCOMPATIBLE WITH RFC[12]Illegal NheI site found at 2173
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25INCOMPATIBLE WITH RFC[25]Illegal NgoMIV site found at 3973
Illegal NgoMIV site found at 4046
Illegal NgoMIV site found at 4531
Illegal NgoMIV site found at 5440 - 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI.rc site found at 6737
Illegal SapI.rc site found at 3268