EP 11 | Post MD Simulation movie for visualization Protein-Ligand complex trajectories | Gromacs

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Hi,
I am Dr. Dweipayan Goswami,
Welcome to my RU-vid channel "Learn at ease"
In this video I have explained how to perform post MD simulation visualization of Protein-Ligand Complex in the from of Video and how to export the video.
Tutorial, Codes and Files used in this video will be found at Github :
github.com/DweipayanG/GROMACS...
This video is in continuation with my previous video:
EP 10 | A to Z of Protein-Ligand MD Simulation in Gromacs | Reusable commands and files provided
• EP 10 | Protein-Ligand...
The files of protein ligand complex is the docked complex which I had prepared in my video :
EP 1 | MOLECULAR DOCKING in UCSF CHIMERA by VINA Plugin from Scratch in Linux
• EP 1 | MOLECULAR DOCKI...
Other important videos available in the Playlist :
• Bioinformatics-Unplugged

Опубликовано:

29 окт 2022

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Комментарии : 19

@JQ-rf1xb Месяц назад

Thank you for your wonderful explanation, it helped me tremendously😁

@945corleone Год назад

One of my teachers used to say, "If someone chooses the hard way to teach you something, know that he doesn't know anything." I haven't seen anyone teach better than you on the RU-vid platform. For this reason, thank you endless thanks.

@DweipayanG Год назад

Thank you for the support and acknowledging my work

@davebruno218 Год назад

Really you did a fantastic explanation and work. Thank you,sir.

@lotfibourougaa6209 Год назад

Thank you very much...

@sanjaisrao484 Год назад

Thank you very much Keep uploading

@sanjaisrao484 Год назад

Learn to ease, ths name is perfect for your channel

@chemistryforall-bynsridhara Год назад

Thank you sir for the valuable tutorial

@rahulnaga5010 6 месяцев назад

Sir can u make a video on mmpbsa. Thank you so much sir for this md videos. It is very much useful

@drusamaraza4287 11 месяцев назад

One of best and easiest way to perform MD simulation, thanks for making so east and conceptual detailed video . I have a question. That if a drug has mechanism of doing conformation change in protein or denature it so how it can be checked through MD simulation or RMSD or protein stability value kindly elobrate it

@sanghyunhwang1297 Год назад

Thank you so much sir

@DweipayanG Год назад

😊

@user-ev3bo8lw7e 4 месяца назад

sir i could not find the MD /ensembled analysis in my tools of chimeraX. please response how i can get that and also is it necessary to have gromacs and chimera in the same system to get that. please reply

@chemistryforall-bynsridhara Год назад

Sir, I have performed a 50ns md simulation, can I extend the simulation to 100ns, if so please guide me thank you.

@user-xl4vu9oh1k Год назад

Nice explanation, however, I find that in a lot of tutorials, waters are stretched, the protein is rotating around, does not seem correct, did you treat the PBC (trjconv) and remove rotation and translation because then only a correct trajectory can be visualized. If you calculate RMSD to first frame within this trajectory, it is going to give weird results since you didn't remove rotation and translation.

@DweipayanG Год назад

Agree 💯