Difference between revisions of "Part:BBa K4165021"
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===Modeling===
 
===Modeling===
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TRrosetta models this composite part with a score of 5 out of 6. The ranking code (you can find the python script file on the programming club page with further explanation of how you can optimize it to your needs). This code works by ranking the predicted 3D structures and scoring them out of 6. In addition, we considered the structural assessment guidelines since the evaluation of the predicted structure depends on the values of Ramachandran Plots, MolProbity, Clash Score, C-Beta Deviations, and QMEAN 4,6.
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TRrosetta models this composite part with a score of 4 out of 6 according to our quality assessment code (you can find the python script file on the programming club page with further explanation of how you can optimize it to your needs).  
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K4165021 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4165021 SequenceAndFeatures</partinfo>

Revision as of 15:07, 7 October 2022


HtrA1 switch 1

This composite part consists of T7 promoter (BBa_K3633015), lac operator (BBa_K4165062), pGS-21a RBS (BBa_K4165016), 6x His-tag (BBa_K4165020), SPINK8 Inhibitor (BBa_K4165010), TD28rev (BBa_K4165006), WWW (BBa_K4165007), H1A peptide (BBa_K4165000) and T7 terminator (BBa_K731721).

Usage and Biology

Switch 11 is used to mediate the activity of HTRA1. Activating HTRA1 requires a conformational change in the linker, eliminating the attached inhibitor from the active site. The conformational rearrangement can be mediated through the affinity clamp for tau and beta-amyloid (both domains of affinity clamp are connected with linker2) binding and stabilizing the inhibitor away from the active site these two domains (inhibitor and affinity clamp connected with linker1). Additionally, (H1A) binding peptide bound to the PDZ domain and connected to the affinity clamp on the other side with linker3.

Modeling

TRrosetta models this composite part with a score of 4 out of 6 according to our quality assessment code (you can find the python script file on the programming club page with further explanation of how you can optimize it to your needs). Sequence and Features


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]