![pymol tutorial carlsson lab pymol tutorial carlsson lab](https://i.ytimg.com/vi/Ztz0QCX1oF8/maxresdefault.jpg)
Now, rather than using three different software, all was possible with only PyMOL. When PyMOL was still in preliminary development at version 0.99 I spent one intense week porting all the class material to PyMOL.
#Pymol tutorial carlsson lab software
This was remedied by adding two other software in the course, one for the “publication quality renderings” ( VMD) and the other for the modeling abilities of side-chain mutations and automated 3D superimposition of structures (Swiss PDB viewer later called DeepView.)
![pymol tutorial carlsson lab pymol tutorial carlsson lab](https://i1.rgstatic.net/publication/341598586_DSSR-enabled_innovative_schematics_of_3D_nucleic_acid_structures_with_PyMOL/links/5ef377be4585153fb1b0f57a/largepreview.png)
![pymol tutorial carlsson lab pymol tutorial carlsson lab](https://i.ytimg.com/vi/49q1w0EuuhU/maxresdefault.jpg)
Rasmol included a sophisticated line command language but lacked the beautiful “photorealistic” renderings of the workstations. For teaching molecular graphics on the Desktop, I first used Rasmol (see tutorial link below,) which was an amazing software fitting in about half of a 3.5” floppy disk or about 500 kilobytes. I personally used what was called “Unix Workstations” ( Silicon Graphics, sgi) which had powerful graphics and rather beautiful “ photorealistic” renderings. This class was a useful complement to the main topic of S equence Analysis and (molecular) Evolution also using computers. Ann Palmenberg classes, in particular teaching about molecular graphics on the Desktop at a time when computer use in the classroom was not yet preeminent.
![pymol tutorial carlsson lab pymol tutorial carlsson lab](https://i.ytimg.com/vi/UR6Vl5fB9xc/hqdefault.jpg)
The information from the ab-initio run is then used to setup a binding pocket-targetet protein-ligand docking run. It is based on a former CASP-CAPRI target (T70).Ī tutorial demonstrating the use of HADDOCK in ab-initio mode to screen for potential ligand binding sites. HADDOCK ab-initio, multi-body symmetrical docking tutorial:Ī tutorial demonstrating multi-body docking with HADDOCK using its ab-initio mode with symmetry restraints. This tutorial does not require any Linux expertise and only makes use of the PS-HomPPI and HADDOCK web servers and PyMol for visualisation/analysis. It combines the PS-HomPPI web server to find suitable templates and generate CA-CA distance restraints and HADDOCK for the CA-CA guided modelling. HADDOCK CA-CA restraints guided docking tutorial:Ī tutorial demonstrating a template-based approach to model protein-protein complexes. The tutorial does not require any Linux expertise and only makes use of the DISVIS and HADDOCK web servers and PyMol for visualisation/analysis. Of a symmetrical homomer complex based on a few (artificial) cross-links. In this tutorial you will have to solve an oligomer puzzle, namely predicting the correct oligomeric state This tutorial builds on our DisVis tutorial and illustrates various scenarios of using This tutorial does not require any Linux expertise and only makes use of our web server and PyMol for visualisation/analysis.Ī tutorial demonstrating the use of cross-linking data from mass spectrometry to guide the docking in HADDOCK. HADDOCK basic protein-protein docking tutorial:Ī tutorial demonstrating the use of the HADDOCK web server to model a protein-protein complex using interface information derived from NMR chemical shift perturbation data. In this page you can find links to tutorials on the usage of our software and webportal HADDOCK 2.2.