Part:BBa_K4165021

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, which eliminates 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. The ranking code (you can find the python script file on the programming club page with further explanation of how you can optimize it upon 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. 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]