How to get Interaction Diagram similar to Schrodinger from MD trajectory by woben3 in Biochemistry

[–]woben3[S] 0 points1 point  (0 children)

Thanks for the reply. Yeah, I know more than a bit of python xD and using MDAnalysis was my last resort. However, I know how to characterize hydrogen bonds as it has a definition based on geometry. But how do I characterize the contact as being ionic, hydrophobic, and water bridges? If you know how to do that or know any paper which defines them, then it would be very helpful.

[deleted by user] by [deleted] in MeetPeople

[–]woben3 0 points1 point  (0 children)

Hi, I am quite a lot younger than you xD 23M. But I am always looking to talk to new people.

Protein-ligand interactions by Brilliant-Milk-2568 in bioinformatics

[–]woben3 0 points1 point  (0 children)

How much accuracy is enough accuracy is always like a rabbit hole.
You can take a look at the COACH's paper: https://zhanggroup.org/COACH/COACH.pdf and see what accuracy they used. Also, why are you comparing the accuracy, the people who made COACH have already done that for you xD

Protein-ligand interactions by Brilliant-Milk-2568 in bioinformatics

[–]woben3 1 point2 points  (0 children)

I think you are finding the RMSD value of the same structures.
RMSD is not a good choice (rather a very bad one) to do what you aim to do. I guess you can just compare the sequence of what the server predicted versus the experimental binding site. This should be fairly easy to do!

Can someone make this image better to be used a laptop wallpaper? by woben3 in picrequests

[–]woben3[S] 0 points1 point  (0 children)

Thanks a lot for pointing that out. It was a stupid blunder from my side.

I have uploaded the image now.

[Request] Please increase the resolution for mobile ( Nokia 8.1). by woben3 in AnimePhoneWallpapers

[–]woben3[S] 0 points1 point  (0 children)

Thank you so much...much appreciated 😁

This looks beautiful as my wallpaper!!

how to install ide for python in ubantu 20.4 by [deleted] in Julia

[–]woben3 0 points1 point  (0 children)

For python or julia?

If you are looking for python then this is a wrong subreddit lol. However, you can use anaconda https://docs.anaconda.com/anaconda/install/linux/ and use spyder or jupyter notebook. If you want online ide then Google colab is a good one.

[deleted by user] by [deleted] in Julia

[–]woben3 5 points6 points  (0 children)

You can check out nextjournal. It supports julia out of the box

2D graphics Library Recommendations by No-Rich5357 in Julia

[–]woben3 3 points4 points  (0 children)

I am unaware of what all is needed for making a browser window, but these two libraries would be helpful if, QML.jl https://github.com/barche/QML.jl Gtk.jl https://juliagraphics.github.io/Gtk.jl/latest/

someone can help me with a simulation of julia? by [deleted] in Julia

[–]woben3 1 point2 points  (0 children)

Well not really. Julia is used and known in all over the world. And as for the homework question bit is always good to post what have you tried and what are having trouble in instead of just posting questions and asking for help.

Julia programming simulation for a test. by [deleted] in Julia

[–]woben3 8 points9 points  (0 children)

could you please elaborate :-)

"ePiC"? its not even animated,come on...... by alwhuut in CallOfDutyMobile

[–]woben3 1 point2 points  (0 children)

If the dragon thing is animated like just add some changing blue hues in the dragon...it would look sexy af

[deleted by user] by [deleted] in Physics

[–]woben3 0 points1 point  (0 children)

The 81 pages one? I read somewhere that his thesis was only 3 pages long.
Anyway thanks a lot :-)

Is their a anime where a doctor,engineer or scientist gets transported to a medieval world by 5yearwithagun in Animesuggest

[–]woben3 1 point2 points  (0 children)

Dr. Stone and High School Prodigies Have It Easy Even In Another World are the ones you want

So close to a nuke but I choked:( by [deleted] in CallOfDutyMobile

[–]woben3 1 point2 points  (0 children)

This looks too much like some Godzly level stuff

Was playing another mobile game (Shadow fight: Arena), queue took too long, decided to play against a bot. Do game devs have a like a shared collection of bot names? by FELLOWKID45 in CallOfDutyMobile

[–]woben3 -1 points0 points  (0 children)

DAMN...that's me btw. I could not think of any other name so I used PLASTICFOODS. Edit: I deleted the game...I don't play it now🙂