There are several ways molecules can interact to produce functional effects in the cell. If the goal is to characterize the interaction between molecules in a signaling pathway the following effects should be considered:
- MA: generic molecule 'A'
- MB: generic molecule 'B'
MA directly interacts with MB changing its status, referring to an increase or decrease of MB's downstream effects.
- MA phosphorylates MB which increases MB activity
- Physical Sequestration
- MA forms inhibitory weak bond with MB
- MA tags MB for protein degradation
MA can change the status of MB through transcription and other pre-translational mechanisms
- Transcription Factor
- MA increases the transcription of MB genes