Table 1. Model parameters for biochemical reactions.
| Species 1 | Species 2 | kon | koff | KD | Reference |
|---|---|---|---|---|---|
| External | |||||
| V | M | Varies | Varies | Varies | Fit |
| Surface | |||||
| V | R2 | 1.0 x 107 M-1s-1 | 1.0 x 10-3 s-1 | 1.0 x 10-10 M | [57] |
| M | V·R2 | 4.2 x 105 M-1s-1 | 1.0 x 10-2 s-1 | 2.4 x 10-8 M | Assumed same as V·M |
| V·M | R2 | 1.0 x 107 M-1s-1 | 1.0 x 10-3 s-1 | 1.0 x 10-10 M | Assumed same as V·R2 |
| V | N1 | 4.8 x 104 M-1s-1 | 1.0 x 10-4 s-1 | 2.1 x 10-9 M | [58] |
| N1 | V·R2 | 3.1 x 1013 (mol/cm2)-1s-1 | 1.0 x 10-3 s-1 | 3.2 x 10-17 mol/cm2 | [57] |
| V·N1 | R2 | 1.0 x 1014 (mol/cm2)-1s-1 | 1.0 x 10-3 s-1 | 1.0 x 10-17 mol/cm2 | [57] |
| V·M | N1 | 0 M-1s-1 | - | - | Assumed |
| V·M·R2 | N1 | 0 M-1s-1 | - | - | Assumed |
| M | V·N1 | 0 M-1s-1 | - | - | Assumed |
| Internal (same in Rab4/5 and Rab11 endosomes) a | |||||
| V | R2 | 1.0 x 107 M-1s-1 | 1.0 x 10-3 s-1 | 1.0 x 10-10 M | [57] |
| V | N1 | 4.8 x 104 M-1s-1 | 1.0 x 10-4 s-1 | 2.1 x 10-9 M | [58] |
| N1 | V·R2 | 3.1 x 1013 (mol/cm2)-1s-1 | 1.0 x 10-3 s-1 | 3.2 x 10-17 mol/cm2 | [57] |
| V·N1 | R2 | 1.0 x 1014 (mol/cm2)-1s-1 | 1.0 x 10-3 s-1 | 1.0 x 10-17 mol/cm2 | [57] |
a All rates for internal reactions were assumed to be the same as on the cell surface. Unit conversion was required (not shown) for kon and KD in internal compartments (from M-1s-1 to (#/cm2)-1s-1 for kon and from M to #/cm2 for KD) using the total volume of the specified endosomal compartment per unit surface area (See S2 Table- not assumed to be spherical). Note that all rates are effective rates; diffusion considerations are lumped into these effective rates.