Amazing video. I had no clue what to even do in pyMOL as it looked intimidating. Now I can easily clean up a protein and focus on presenting the binding pocket im interested in
The tutorial was absolutely fantastic and made to involve more but I could not find the link for the continuation of this video regarding labelling for each residue,, can anyone share the continuation of this video link plzz
HELLO Sir, thanks for this amazing tutorial. How will we know what chains to delete in the protein molecule? ( If the chains are non identical). Is there any criteria for that? Also, can a ligand be in its 2D form for docking?
Dear I have performed docking using pyrx and visualized using discovery studio. but I want to visualized through pymol+lingplot. What I do. Share any video or details Thanks
So nice of you : ) Thank you so much for your kind support and for your comment as well.. It should work if you are not able to get the sequence, try reinstalling the software again.
show sticks, by res all within 5 ligand i was write according to your information but residues not coming, in your video it is also not clear, can you please give me detail
Thank you so much for your kind support and for your comment as well.. You need to select the residue option not the chain option at the bottom of the right corner. Play around I am sure you will figure it out. Which molecular you are exploring...
Your content and way of explaining is out of the world sir. Thanks a lot for clearing out long term doubt.
Thanks and welcome
it was so helpful that i immediately subscribed the channel!! sending love from Shanghai
Awesome! Thank you!
Amazing video. I had no clue what to even do in pyMOL as it looked intimidating. Now I can easily clean up a protein and focus on presenting the binding pocket im interested in
Glad it was helpful!
Thank you very much. It was really helpful and speeded up my work efficiency with PyMol
Glad it helped! Thank you for your valuable feedback!
oh my God. sir, I love you. everywhere else the instruction is so sparse and general. thank you !!!
Thank you so much for your kind support!
This is very helpful - thank you very much Professor!
Thank you so much!!
amazing video, thank you so much!
Glad you liked it!
Thank you so much, sir. Can we get more tutorials as you said in this video? Like: "Finding the residues in the ligand binding pocket."
Sure thing! Will do my best 🙏🏼Thanks alot 🙏🏼
thanks so much!!!
so easy to follow
Glad it helped!
The tutorial was absolutely fantastic and made to involve more but I could not find the link for the continuation of this video regarding labelling for each residue,, can anyone share the continuation of this video link plzz
Will try to make more useful more, stay tuned for more 🙏🏻🙏🏻Thank you
HELLO Sir, thanks for this amazing tutorial. How will we know what chains to delete in the protein molecule? ( If the chains are non identical). Is there any criteria for that? Also, can a ligand be in its 2D form for docking?
Well by manually selecting the chains and then go to remove object
Very clear - thank you
Glad it was helpful!
Dear I have performed docking using pyrx and visualized using discovery studio. but I want to visualized through pymol+lingplot. What I do.
Share any video or details
Thanks
That's a great question, let me search on it and hopefully I ll bring a video on it soon 🙏🏻🙏🏻
Thanks 😊
Welcome 😊
thank you sir. everything is going well except when tap the bottom"S" at the underside bar no sequence information occured.
So nice of you : ) Thank you so much for your kind support and for your comment as well.. It should work if you are not able to get the sequence, try reinstalling the software again.
Hello sir, how do we get XYZ coordinates of a particular ligand and it's interaction with other molecules on the PDB?
Use autodock tools
Can you do protein-protein binding affinity? Like binding sites of an antibody to a particular cell-surface protein?
Use cluspro server
show sticks, byres all within 5 of ligand
For those who coudn't see the screen like me. copy paste this cmd
Use laptop if you want to watch the video it won't be helpful with mobile phones. Thanks for your comment 🙏🏼
@@BasicScienceSeries Can you make a video on how to calculate the volume of substrate binding site? Thanks in advance... :)
Thanks, it helps alot. English is not my first language, so it sounds unclear to me.
show sticks, by res all within 5 ligand
i was write according to your information but residues not coming, in your video it is also not clear, can you please give me detail
Can you provide more details on the issue what command you are following ??
thank you, sir!!
Thanks for your comment 🙏🏼
thank you for this video
So nice of you
Dear, what's the comand for select the residues close to the ligant? Thank you very much.
Check this on out, number of commands with examples: pymolwiki.org/index.php/Selection_Algebra
yes, since the picture is not clear enough to see 😢
could you please write the command of show sticks you used
Mentioned in the video. Hope it helps.
life saver
Thank you so much for your feedback!
i need to watch next part,,,
kindly provide me i haven't found
Soon, working on it.
The command is not clearly visible mention in the comments, please
Please check the comment section, if it is not posted already, let me know thanks 🙏🏼
when i select chain the ligand also selected i dont know why
Thank you so much for your kind support and for your comment as well.. You need to select the residue option not the chain option at the bottom of the right corner. Play around I am sure you will figure it out. Which molecular you are exploring...
Sir How to design anti drug conjugation
Please elaborate more
Good video. Fonts are too small.
Thanks will work on that 👍🏼
provide me link of next video
Soon!
Erica Extensions
Hmmm
Kevon Corners
Thanks for the comment
Boehm Spring
Hmmm
Crist Forges
Hmm
Moshe Trail
Hmmm