In the MS/MS scan modes, the MS uses the strength of the axial drag field to remove the ions of the previous reaction from the collision cell.
The collision cell surrounds Q2 and is usually pressurized from 0.5 × 10–3 to 4 × 10–3 Torr with argon collision gas. The collision cell is where collision-induced dissociation (CID) takes place.
CID is a process in which an ion collides with a neutral atom or molecule and then, because of the collision, the ion dissociates into smaller fragments. The mechanism of dissociation involves converting some of the kinetic energy of the ion into internal energy. This collision places the ion in an excited state. If the internal energy is sufficient, the ion fragments.