Table 2. Summary of the effective kinetic constants for the effective models described in Fig. 3 and their relationship to the fundamental kinetic constants of Table 1.
Model | effective constant | Eq. no. | Units | Dimension | Assay† and references |
---|---|---|---|---|---|
PBA | (6) | s−1 | 2D | TF‡ ref. 10 | |
koff = k− | (7) | s−1 | 2D | TF‡ ref. 10 | |
(8) | — | 2D | TF‡ ref. 10 | ||
PBB | (9) | s−1 | 2D | TF§ ref. 10 | |
(10) | s−1 | 2D | TF§ ref. 10 and MD-SMFM ref. 25 | ||
(11) | — | 2D | TF§ ref. 10 | ||
(12) | s−1 | 3D | Bulk FRET ref. 6 | ||
(13) | s−1 | 3D | Bulk FRET ref. 6 and MD-SMFM ref. 24 | ||
(14) | — | 3D | Bulk FRET ref. 6 | ||
FRET | (15) | s−1 | 2D | SM-FRET ref. 11 | |
(16) | s−1 | 2D | SM-FRET ref. 11 | ||
(17) | 2D | SM-FRET ref. 11 | |||
SS | (18) | s−1 | 2D | AF ref. 10 | |
(19) | s−1 | 2D | AF ref. 10 | ||
(20) | 2D | AF ref. 10 | |||
(21) | M−1s−1 | 3D | SPR refs 2,6,7 | ||
(22) | s−1 | 3D | SPR refs 2,6,7 | ||
(23) | M−1 | 3D | SPR refs 2,6,7 |
PBA: Pre-binding model A; PBB: Pre-binding model B; FRET: FRET model; and SS: Single-step model.
†TF, thermal fluctuation. MD-SMFM, molecular diffusion and single molecule fluorescent microscopy. FRET, fluorescence resonance energy transfer. SM, single molecule. AF, adhesion frequency. SPR, surface plasmon resonance.
‡Assuming unbinding implies a change of orientation.
§Assuming multiple binding/unbinding events take place before a change of orientation.