From: Exploring the rate-limiting steps in visual phototransduction recovery by bottom-up kinetic modeling
Param. | Unit | Description | Reaction no. | Dell’Orco & Koch[19] | Present model | Present source |
---|---|---|---|---|---|---|
kG10 | s-1 | Rate of binding of Gt to unphosphorylated R* | DO-13 | 3.28e-5 | 2.416e-2 | Optimized |
k RK10 | s-1 | Rate of binding of RK to unphosphorylated R* | DO-2 | 7.543e-3 | 5.198e-2 | Optimized |
m RK | Slope of the rate of decrease in RK affinity for R* with increasing phosphorylation events | DO-2 | 0.1 | Manually tuned | ||
k Arr | s-1 | Rate of binding of Arr to R* with a single phosphate attached | DO-5 | 6.092e-10 | 6.204e-8 | Optimized |
m Arr | Slope of t The rate of increase of Arr-R* affinity with additional R* phosphorylations | DO-5 | 1.14e-8 | Optimized | ||
k A2 | s -1 | Rate constant of dissociation of R* from Arr · R* without R* deactivation | DO-5 | 3.232e-3 | 2.754e-4 | Optimized |
k A3 | s-1 | Rate constant of dissociation of R* from Arr · R* after R* deactivation | DO-6 | 4.451e-2 | 2.649e-2 | Optimized |
k A4 | s -1 | Rate constant of Arr self-association | 3, 4 | 1.787e-8 | Optimized | |
k A5 | s -1 | Rate constant of Arr self-dissociation | 3, 4 | 0.646 | Manually tuned | |
k RGS1 | s -1 | Rate of binding RGS to an effector complex | DO-22, DO-24 | 1.57e-7 | 1.86e-7 | Optimized |
k PDEshutoff | s -1 | Rate constant of PDE-induced shutoff of an effector complex | DO-26, DO-27 | 3.3e-2 | 2e-2 | Manually tuned |
k Rec1 | μM-1 s-1 | Ca2+−dependent rate of Rec conformational change from “tense” to “relaxed” form | 1 | 0.011 | [43] | |
k Rec2 | s -1 | Rate of Rec conformational change from “relaxed” to “tense” form | 1 | 0.05 | [43] |