Wiki source code of Molecular Tools: protein association rates and binding sites
Hide last authors
| author | version | line-number | content |
|---|---|---|---|
 |
1.1 | 1 | (% class="jumbotron" %) |
| 2 | ((( | ||
| 3 | (% class="container" %) | ||
| 4 | ((( | ||
| |
20.1 | 5 | = Molecular Tools: |
| 6 | protein association rates and binding sites = | ||
| |
1.1 | 7 | |
| |
15.1 | 8 | This collab contains a set of tools and tutorials for exploring protein binding properties based on their electrostatics and estimation of protein-protein association rates |
| |
11.1 | 9 | |
| |
9.1 | 10 | Authors: Stefan Richter |
| |
1.1 | 11 | ))) |
| 12 | ))) | ||
| 13 | |||
| 14 | (% class="row" %) | ||
| 15 | ((( | ||
| 16 | (% class="col-xs-12 col-sm-8" %) | ||
| 17 | ((( | ||
| 18 | = What can I find here? = | ||
| 19 | |||
| |
17.1 | 20 | Please note, the corresponding usecases as jupyter notebooks will be transferred from Collaboratory 1. So far they can be found here: |
| |
16.1 | 21 | [[https:~~/~~/collab.humanbrainproject.eu/#/collab/1655/nav/362934>>https://collab.humanbrainproject.eu/#/collab/1655/nav/362934]] |
| 22 | |||
| |
17.1 | 23 | The corresponding guidebooks can be found here: |
| 24 | [[https:~~/~~/collab.humanbrainproject.eu/#/collab/1655/nav/18580>>https://collab.humanbrainproject.eu/#/collab/1655/nav/18580]] | ||
| 25 | |||
| 26 | The descriptions of | ||
| 27 | |||
| |
10.1 | 28 | * ((( |
| |
11.1 | 29 | Tools and tutorials that describes how to: |
| 30 | |||
| 31 | * simulate protein-protein association using Brownian Dynamics (BD) simulations (web server webSDA) | ||
| |
10.1 | 32 | * analyse the results of a Brownian dynamics simulation for calculating protein-protein association rate constants |
| 33 | * compute protein electrostatic potential (under development) | ||
| 34 | * ((( | ||
| 35 | compare the electrostatic potentials surrounding a set of protein isoforms or specific regions with multipipsa (under development) | ||
| 36 | ))) | ||
| 37 | * ((( | ||
| |
12.1 | 38 | identify potential protein binding sites by comparing the electrostatic potentials of a set of protein isoforms (under development) |
| |
10.1 | 39 | ))) |
| 40 | ))) | ||
| |
1.1 | 41 | |
| 42 | = Who has access? = | ||
| 43 | |||
| |
9.1 | 44 | All EBRAINS users |
| |
1.1 | 45 | ))) |
| 46 | |||
| 47 | |||
| 48 | (% class="col-xs-12 col-sm-4" %) | ||
| 49 | ((( | ||
| 50 | {{box title="**Contents**"}} | ||
| 51 | {{toc/}} | ||
| 52 | {{/box}} | ||
| 53 | |||
| 54 | |||
| 55 | ))) | ||
| 56 | ))) |