If you have a question or if you like it, feel free to leave a message ...
Tuesday, 17 June 2008
Glucocorticoid receptor (3)
Again the same molecule with a few more pictures. They were made with the "apple cutting" plugin from Lightnir. It cuts a plane through the protein. The orientation of this plane is not entered manually but chosen automatically by the viewing perspective which is a pretty cool idea in my opinion.
With pymol and this plugin you can quickly visualise a binding pocket and make pictures like this one ...
Ok, I added changing the orientation of the plane to my TODO list on that script. Also a plane preview would be nice(using PyMols CGO). Any other wishes?
hi, actually I just ment to say that it is a nice thing that this plane is automatically chosen according to the viewing perspective. of course it would also be fun to see this plane but not necessary. one thing you could do, is that you cannot only use selections but also objects for the ligand and pocket (my ligand was an object because I wanted to change it separately from the protein). but of course it is no problem either to create a selection anyway, I think that plugin is very nice as it is
Hi! You are right about adding the object support. I wonder why I haven't thought of this earlier. I've already implemented this feature it in the new version of the plugin. I'll probably implement the rest of my ideas on this weekend, when i have more time for it. So stay tuned.
PS. I hope with a little help of this tool we will see here binding site images more often ]:)
On change
-
Two weeks ago, outside a coffee shop near Los Angeles, I discovered a
beautiful creature, a moth. It was lying still on the pavement and I was
afraid som...
Doubly excited states
-
Our new paper “Classification of Doubly Excited Molecular Electronic
States” just appeared in Chemical Science. The topic of doubly excited
states has be...
New Website
-
Dear Reader
After years of misusing this blog for a website, I finally made a real
website for myself. You can find it here (www.janmewes.de) since I mov...
Welcome to the ISPG, Zoe, Jack, and Daniel!
-
The ISPG welcomes three new members! Zoe Crome is a 4th-year project
student at Durham University. Jack Taylor is a new PhD Student in the
group, in joint ...
Computational Chemistry Highlight: September issue
-
The September issue of Computational Chemistry Highlights is out.
CCH is an overlay journal that identifies the most important papers in
computational and ...
Akademiker Ball
-
Wenn es eine Sache gibt, die die FPÖ so richtig gut kann, dann ist das das
Schwelgen im Selbstmitleid. So wie es derzeit am Ring aussieht, wird es
dafür wi...
ARP flux problem solution
-
Jakieś dwa tygodnie temu miałem pewien pomysł jak zutylizować jeden z
serwerów, którym zarządzam docelowo rozszerzając usługę DHCP na trzy
podsieci. Tak si...
3 comments:
Ok, I added changing the orientation of the plane to my TODO list on that script. Also a plane preview would be nice(using PyMols CGO). Any other wishes?
]:)
hi, actually I just ment to say that it is a nice thing that this plane is automatically chosen according to the viewing perspective. of course it would also be fun to see this plane but not necessary.
one thing you could do, is that you cannot only use selections but also objects for the ligand and pocket (my ligand was an object because I wanted to change it separately from the protein). but of course it is no problem either to create a selection
anyway, I think that plugin is very nice as it is
Hi! You are right about adding the object support. I wonder why I haven't thought of this earlier. I've already implemented this feature it in the new version of the plugin.
I'll probably implement the rest of my ideas on this weekend, when i have more time for it. So stay tuned.
PS. I hope with a little help of this tool we will see here binding site images more often ]:)
Post a Comment