RBS

Part:BBa_K4601103

Designed by: Doriane Blaise   Group: iGEM23_Evry-Paris-Saclay   (2023-09-23)
Revision as of 18:02, 2 October 2023 by Do-riane (Talk | contribs)


Synthetic RBS designed for NpHR

This part is a synthetic RBS specifically designed for the NpHR halorhodopsin (BBa_K4601003) using the Salis Lab RBS Library Calculator v2.0 [1-3].

Usage and Biology

This RBS was used to drive the expression of NpHR (BBa_K4601003) under the control of the T7 promoter (BBa_K2150031) in the composite part BBa_K4601203.

Using the Salis Lab RBS Library Calculator v2.0 [1-3], the predicted features of this RBS are: 

Translation Initiation Rate (au)	:	10197,93
dG_total (kcal/mol)	:	-4.69
dG_mRNA_rRNA (kcal/mol)	:	-16.64
dG_spacing (kcal/mol)	:	0.0053
dG_stacking (kcal/mol)	:	0
dG_standby (kcal/mol)	:	2.34
dG_start (kcal/mol)	:	-2.76
dG_mRNA (kcal/mol)	:	-12.80
Warnings	:	none

This RBS was selected as predicted to have a Translation Initiation Rate (TIR) of about 10000 au from a library of 108 RBSes (GGGTAATTTKCCAVATVAGSAGGTATTB) for which the estimated TIR range from 2810.71 to 376914.59.

References

[1] Reis AC, Salis HM. An automated model test system for systematic development and improvement of gene expression models. ACS synthetic biology (2020) 9: 3145–3156.

[2] Farasat I, Kushwaha M, Collens J, Easterbrook M, Guido M, Salis HM. Efficient search, mapping, and optimization of multi-protein genetic systems in diverse bacteria. Molecular Systems Biology (2014) 10: 731.

[3] Ng CY, Farasat I, Maranas CD, Salis HM. Rational design of a synthetic Entner-Doudoroff pathway for improved and controllable NADPH regeneration. Metabolic Engineering (2015) 29: 86–96.


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]


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Categories
Parameters
None