# Minnesota/8 June 2009

(Difference between revisions)
 Revision as of 20:30, 28 July 2009 (view source)Bswiniar (Talk | contribs)← Older edit Revision as of 20:31, 28 July 2009 (view source)Bswiniar (Talk | contribs) Newer edit → Line 14: Line 14: ! Reverse Kinetic Constant ! Reverse Kinetic Constant |- |- - | RNAp + lacP + lacI4:lacO1 ->  RNAp:lacP||k = 6.23E+05|| + | RNAp + lacP + lacI4:lacO1 ->  RNAp:lacP||6.23E+05|| |- |- - | row 2, cell 1 + | RNAp + lacP + lacO1 ↔ RNAp:lacP||1E+07|| 1 | row 2, cell 2 | row 2, cell 2 | row 2, cell 3 | row 2, cell 3

## Revision as of 20:31, 28 July 2009

Today the first model of the TNN system was created. In order to do this, the previous work of the Kaznessis group was used to provide a basis for a a lot of the reactions. This allowed us to easily obtain reasonable kinetic constants for almost all the reactions in the model. Here is the first incarnation of the model (many future models will simply change this one):

Reaction Forward Kinetic Constant Reverse Kinetic Constant
RNAp + lacP + lacI4:lacO1 -> RNAp:lacP6.23E+05
RNAp + lacP + lacO1 ↔ RNAp:lacP1E+07 1 row 2, cell 2 row 2, cell 3

RNAp + lacP + lacI4:lacO1 -> RNAp:lacP k = 6.23E+05 RNAp + lacP + lacO1 ↔ RNAp:lacP kf = 1E+07 kr = 1 RNA:lacP -> RNAp:lacP* k = .01 RNAp:lacP* -> lacP + lacO1 + RNAp:DNAgfp k = 30 RNAp:DNAgfp -> RNAp + gfp_mRNA k = 30 gfp_mRNA + rib -> rib:gfp_mRNA k = 100000 rib:gfp_mRNA -> rib:gfp_mRNA_1 + gfp_mRNA k = 33 rib:gfp_mRNA_1 -> rib + gfp k = 33 tetR2 + aTc ↔ tetR2:aTc kf = 2E+09 kr = 4E-04 tetR2:aTc + aTc ↔ tetR2:aTc2 tetR2:aTc + tetO1 ↔ tetR2:tetO1:aTc tetR2:aTc2 + tetO1 ↔ tetR2:tetO1:aTc2 tetR2:tetO1 + aTc ↔ tetR2:tetO1:aTc tetR2:tetO1:aTc + aTc ↔ tetR2:tetO1:aTc2 tetR2 -> Ø tetR2:aTc -> aTc tetR2:aTc2 -> 2 aTc tetR2 + nsDNA ↔ tetR2:nsDNA tetR2:aTc + nsDNA ↔ tetR2:aTc:nsDNA tetR2:aTc:nsDNA -> aTc + nsDNA tetR2:nsDNA -> nsDNA Ø -> tetR2 aTc -> Ø Ø -> aTc gfp_mRNA -> Ø k = 1.16E-03 gfp -> Ø k = 3.21E-05