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Molecular Modelling for Immunology
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Web site for the 3D Structure & Modelling workshop of the Master in Medical Biology, Immunology And Cancer, from the University of Lausanne.
This web site has been designed to be used with the Chrome web browser. Please install Chrome to use this web page.
Several links are accessible on this page that allow visualizing 3D structures of proteins on computers equiped with the UCSF Chimera program. To use this web page, please, install the "current production release" version of UCSF Chimera that you can find here: Download UCSF Chimera.
Note that all machines of the B304 room of Epalinges are already setup correctly. No further installation is required and 3D structures will be automatically loaded in UCSF chimera after clicking on the links.
This web site has been designed to be used with the Chrome web browser. Please install Chrome to use this web page.
Several links are accessible on this page that allow visualizing 3D structures of proteins on computers equiped with the UCSF Chimera program. To use this web page, please, install the "current production release" version of UCSF Chimera that you can find here: Download UCSF Chimera.
Note that all machines of the B304 room of Epalinges are already setup correctly. No further installation is required and 3D structures will be automatically loaded in UCSF chimera after clicking on the links.
Lecture
The PDF file of the lecture's slides can be found here.
The following links give you access to the UCSF Chimera 3D sessions corresponding to the lecture's illustrations. This will allow you to manipulate in 3D the structures that will be displayed during the lecture.
Prologue: molecular representations
Origin of the 3D structures
Molecular recognition
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
You can change the representation of residue #2:2 to "sphere" for a better visualization of the space filling.
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
3D structure of the peptide-MHC Class I complex.
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
3D structure of the peptide-MHC Class II complex.
![](images/dna-helix-24.png)
Open the "Model Panel" to show/hide surfaces.
3D structure of the complex between TCR and pMHC Class I.
![](images/dna-helix-24.png)
![](images/dna-helix-24.png)
Open the "Model Panel" to show/hide surfaces.
![](images/dna-helix-24.png)
![](https://www.immunology-and-modelling.ch/images/Timeline-small.jpg)
Exercises
The PDF file of the exercises can be found here.