Difference between revisions of "Part:BBa K4432012"

 
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<partinfo>BBa_K4432012 short</partinfo>
 
<partinfo>BBa_K4432012 short</partinfo>
  
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This part is a synthetic RBS specifically designed for the ''Escherichia coli'' isopentenyl diphosphate isomerase (idi) ([[Part:BBa_K3166068|BBa_K3166068]]) using the [https://www.denovodna.com/ Salis Lab RBS Calculator v2.0] [1, 2].
  
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===Usage and Biology===
 
===Usage and Biology===
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This RBS was used to drive the expression of idi ([[Part:BBa_K3166068|BBa_K3166068]]) under the control of the T5 promoter ([[Part:BBa_K4432000|BBa_K4432000]]) in the composite parts [[Part:BBa_K4432122|BBa_K4432122]], [[Part:BBa_K4432320|BBa_K4432320]] and [[Part:BBa_K4432321|BBa_K4432321]].
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Using the Salis Lab RBS Calculator v2.0 [1,2], the predicted features of this RBS are:
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Translation Initiation Rate (au) : 1125127.53
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dG_total (kcal/mol) : -13.58
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dG_mRNA_rRNA (kcal/mol) : -18.48
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dG_spacing (kcal/mol) : 0.0
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dG_standby (kcal/mol) : 0.0
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dG_start (kcal/mol) : -1.19
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dG_mRNA (kcal/mol) : -6.1
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Accuracy (warnings) : OK
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===References===
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[1] Espah Borujeni A, Channarasappa AS, Salis HM. Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites. Nucleic Acids Res (2014) 42, 2646-2659.
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[2] Salis HM, Mirsky EA, Voigt CA. Automated design of synthetic ribosome binding sites to control protein expression. Nat Biotechnol (2009) 27, 946-50.
  
 
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Revision as of 21:47, 1 October 2022


Synthetic RBS designed for idi

This part is a synthetic RBS specifically designed for the Escherichia coli isopentenyl diphosphate isomerase (idi) (BBa_K3166068) using the Salis Lab RBS Calculator v2.0 [1, 2].

Usage and Biology

This RBS was used to drive the expression of idi (BBa_K3166068) under the control of the T5 promoter (BBa_K4432000) in the composite parts BBa_K4432122, BBa_K4432320 and BBa_K4432321.

Using the Salis Lab RBS Calculator v2.0 [1,2], the predicted features of this RBS are: 

Translation Initiation Rate (au)	:	1125127.53
dG_total (kcal/mol)	:	-13.58
dG_mRNA_rRNA (kcal/mol)	:	-18.48
dG_spacing (kcal/mol)	:	0.0
dG_standby (kcal/mol)	:	0.0
dG_start (kcal/mol)	:	-1.19
dG_mRNA (kcal/mol)	:	-6.1
Accuracy (warnings)	:	OK

References

[1] Espah Borujeni A, Channarasappa AS, Salis HM. Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites. Nucleic Acids Res (2014) 42, 2646-2659.

[2] Salis HM, Mirsky EA, Voigt CA. Automated design of synthetic ribosome binding sites to control protein expression. Nat Biotechnol (2009) 27, 946-50.

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]