Part:BBa_K4165167
His - DocS
This composite part consists of T7 promoter (BBa_K3633015), lac operator (BBa_K4165062), RBS 4 (BBa_K4165264), 6x His-tag (BBa_K4165020), DocS (BBa_K3396000) and T7 terminator (BBa_K731721).
Usage and Biology
DOCs protein is a part of the Snitch system, which binds to the His tag for the purification of the Docs.
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI.rc site found at 45
Modeling
Model “peptide (His_DocS) modeled by TRrosetta model1” Ranked the Third model from our 4 ones with a score 5 out of 6 and values of
| cbeta_deviations | clashscore | molprobity | ramachandran_favored | ramachandran_outliers | Qmean_4 | Qmean_6 |
|---|---|---|---|---|---|---|
| 0 | 0 | 0.77 | 96 | 0 | -0.29 | -0.27 |
Figure 1. The 3D structure of His Docs model Displayed on Pymol.
Mathematical modeling
Transcription rate and translation rate under T7 promotor
the mathematical modeling was based on our code for the calculation of transcription and translation (you can find it in the code section) beside with the estimated results from the wet lab.
Figure 2. this figure shows the results from the transcription and translation code showing
the variation of mRNA and protein concentrations with time compared with the wet lab results.
WetLab Results
Comparison between the mathematical model of dry lab and the wet lab results of His DOC using sonicator and chemical lysis
We have made a statistical analysis (t-test) to investigate the mathematical model's effectiveness in predicting the amount of the produced protein due to IPTG induction, whereas the test compares the mathematical model expected results to the replicates made in the induction experiment, given that all the condition of the experiment has been input to the model generating the predicted results.
Figure 3. This graph shows the correlation between the mathematical model of the dry lab and the wet lab
results of the His DOC using a sonicator
Figure 4. This graph shows the correlation between the mathematical model of the dry lab and the wet lab
results of His DOC using chemical lysis
| None |