1 / 25

Understanding Protein Dynamics: Flowcharts and Differential Equations

This document explores the dynamics of protein translation and degradation through a series of flowcharts and differential equations. It elaborates on various scenarios such as no degradation or translation for proteins and addresses how momentary distortions can differentiate between proteins. The material outlines the time-course and rise time involved in protein interactions, illustrating the importance of initial conditions and steady states in modeling protein behavior. The intricacies of these processes highlight the complexity of protein dynamics in biological systems.

manasa
Télécharger la présentation

Understanding Protein Dynamics: Flowcharts and Differential Equations

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Canonical protein dynamics Flowchart Differential equation Solution f 0

  2. Physical picture of protein translation and degradation No degradation for this protein No translations 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + No change 20 Note: Proteins can be distinguished by momentary distortions.

  3. Physical picture of protein translation and degradation Chance translation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  4. Physical picture of protein translation and degradation Neglecting to roll dice on this freshly generated protein. 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + No change 20 Note: Proteins can be distinguished by momentary distortions.

  5. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + No change 20 Note: Proteins can be distinguished by momentary distortions.

  6. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  7. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 Rolled dice for protein that was already degraded! + + + + No change 20 Note: Proteins can be distinguished by momentary distortions.

  8. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  9. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  10. Physical picture of protein translation and degradation Chance translation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  11. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  12. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  13. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  14. Physical picture of protein translation and degradation Chance translation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  15. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  16. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  17. Physical picture of protein translation and degradation 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + + 20 Note: Proteins can be distinguished by momentary distortions.

  18. Physical picture of protein translation and degradation Between times and 10 0 11 1 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 + + + + + + Proteins lost Proteins added 20 Note: Proteins can be distinguished by momentary distortions.

  19. Physical picture of protein translation and degradation 30 Limitation!!! (But we all do it this it this way) 29 10 0 1 11 12 2 13 3 14 4 15 5 16 6 17 7 18 8 19 9 28 Realistic trajectory f + + + + + + Unrealistically smooth trajectory STOP 20 Note: Proteins can be distinguished by momentary distortions. x(# proteins)

  20. Canonical protein dynamics Flowchart Differential equation Solution f 0

  21. Time-course and rise time Declare initial condition, for example, “start at time 0 with no protein” Look for possible steady states Estimate some slopes f 0

  22. Time-course and rise time f 0

  23. Time-course and rise time f 0

  24. Time-course and rise time Show f STOP 0

  25. Time-course and rise time f 0

More Related