Docking Result Analysis via AutuDock || Procedure || AutoDock Series
ฝัง
- เผยแพร่เมื่อ 11 ก.ย. 2024
- Hi Everyone!
Welcome to TH-cam channel of OrganoMed.
In this video, I had demonstrated how to analyse Molecular Docking Results through AutoDock.
Hope you all will like this video.
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#autodock #autodockresultanalysis #moleculardockingresultanalysis #moleculardocking
Wow... Easy going & Very well explained 👏👏... This is what i was searching for so long for my project... 😍😍I have seen many videos of mol. docking but i didn't find how to interact the protein and ligand or their interaction...I found complete mol. docking and interaction in yours videos...Thanks❤️...Good job 👌👌keep making more videos 🤗 ☺️stay Blessed💕 😇
Thank you so much 🙂
Excellent explanation mam
Nice👍👍👍
great job done...easy to understand
Nice video, can you please make a video in which is explained how performing a docking with a metal ion and bring the results in 2D ?
Sure
Hello!
I have several questions regarding Autodock, in this case Vina... I hope you can help me 😂
1. Can I assume "exhaustiveness" parameter as the effort of how many "runs" the program need to obtain the result?
2. Can I consider that the 10 results from Vina as "10 probabilities"?
Well the case is the first result which has the best binding affinity does not have the residue-ligand interaction that I desired. But when I check the other 9 poses, several of them have the residue interaction that I intend to report. Thus, I think there are 10 possibilities of ligand poses, though the best binding affinity has the highest probability to occur "in real life", the other 9 are still possible.
Since the first result has zero interaction, but the remaining results have more than one interaction, I intended to report "This ligand may have up to X interactions with target protein".
Nice information
Great 👏👏
How to get dlg file? I only get output.pdbqt and log file
perfect, thank you a lot
Perfect thanks for sharing your thoughts with me thanks done Mashallah
Can you please show us how to dock organometallic compounds in autodock
Can it measure the hydrogen bond distance from the ligand?
Thanks a Lot.
thank u soo u are big help
i followed the instructions \
Sir suupose hum ek research article likh rahe hain , sir kya hum comparison ke liye aesa kar sakte hain kya, jese remdesivir ke liye dimension xyz alag rakh rahe hain isme humne docking autodock vina , command prompt waale step se docking ki , or other multiple ligands ke liye humne autodock vina , command prompt se docking nahi ki more than two ligands hone ke usse , isme humne pyrx virtual screening ka use kiya or dimension xyz bhi different rakhi as compare to remdesivir...
To sir kya hum comparison kar sakte hain ab remdesivir or ye multiple ligands kaa.... Yaa hume sabhi ligands ke liye pyrx virtual screening he krni pdegi , agar hum research article m isko publish karana chahte hain to.... Sir koi problem create to nahi hogi dimension different rakhkr comparison kiya karkr
Hello, When I click on 'show interactions', I am getting an error.
'Traceback (most recent call last):
File "C:\Program Files (x86)\MGLTools-1.5.6\lib\site-packages\ViewerFramework\VF.py", line 898, in tryto
result = command( *args, **kw )
.
.(some more similar errors)
.
Memory Error'
Any idea how to fix that?
I have the same problem, is there a way to fix it?
How can we solve this please help me out
anyone found out?
Is there any way or software to analyze protein-protein docking results. Kindly guide...?
How can I zoom the image in autodock
Hey can u tell me how I can analyase docking score from autodock vina results
You can do it in the same way as shown in autodock. or you can also analyze it using Discovery studio.
Have any way to dock DNA with protein
How to save a complete dock file in pdb format
I got the results of docking, but the problem is that I don't know how to explain the results in my paper
Same problem. How to explain in paper, any idea then?
how can we find number of hydrogen bonds, electrostatic information?
For that I will suggest Discovery Studio because there you can analyze it better.
@@organomed plz make a video on that or guide me. thanks
@@adnansarwar1541 you can check out the end part of this video or pyrx video already uploaded th-cam.com/video/6BCIQBOswyo/w-d-xo.html
Hbb gene docking 147***gpcrs 7*❤ honey 👌🧬 biological treatment
thankyou for sharing ...🙌 #bioinformatics