Homology Modeling Tutorial- PART 2

Рет қаралды 23,571

Sanket Bapat

Күн бұрын

Пікірлер: 60

@nishthabhardwaj6629 4 жыл бұрын

Thanks sir , very helpful . Plz make more bioinformatics video related to other databases.

@sanketbapat 4 жыл бұрын

You can check my playlist on biological databases.

@theburningfloor6505 3 жыл бұрын

the only channel which helped me with my bioinformatics practical

@AK1027-ar Жыл бұрын

Thanks a lot sir ... Saving million clueless minds... 😊great to have u and ur learning as a part of my learning ❤

@shivangimishra6683 7 ай бұрын

Grateful for the one Sir. Amazing tutorial. Keep going!

@quratulainbabar9231 3 жыл бұрын

Very informative and helpful. Thanks for existing and helping us😇😇😇😇

@zainiiBee 3 жыл бұрын

Thanks sir but what if my template building step in SWISS Model shows highest identity of only 30%? Then SWISS Model is not the tool for me right? what should i do

@rabiakhatoon7920 4 жыл бұрын

sir can you explain what is the unknown target sequence ???

@SufyanKhan-qv4js 3 жыл бұрын

Hello sir your tutorials is very informative and easy to understand and follow. Sir I tried to build a model for SARS cov 2 envelope protein. Sir it's GMQE is 0.42 and it's QMEAN is -3.40 while it's coverage is 0.77 and sequence identity is 91.4% so can I use this model?

@honeyrachelelike2034 2 жыл бұрын

Sir, please make a video of threading method.

@radhakrishna4329 3 жыл бұрын

sir, can we consider homology modeling as multiple sequence alignments of known protein to identify related sequences in database searches?

@suharjaralalatu9504 4 жыл бұрын

Hello, sir. if I want to build a binary protein model with a homology approach, are the steps I took the same as you described? Thank you.

@Subhamvlogs010 4 жыл бұрын

This is very much infermative sir

@amritsudershan8770 4 жыл бұрын

Very beautyfull sir... And very very thankss sir... When will u upload the vedio tutorial related to predict the change in protein structure due to mutation

@chandukishore8238 2 жыл бұрын

Thank you, Very Helpful

@joelgaikwad1 3 жыл бұрын

very well explained. Great job.

@manju8109 4 жыл бұрын

Hello sir, plz also explains about ligands showed in the model.

@limahazarika 4 жыл бұрын

Sir, what does the graph in the middle indicates?

@amarkar11 3 жыл бұрын

Can you send this sequence??

@nursurayaabdwahab9196 3 жыл бұрын

Hi Sir, I would to ask, if our template have ligand, so before we start our docking simulation, we have to remove the ligand that are bounded right?

@hnnn2341 3 жыл бұрын

Can anyone plz tell me the name of a protein whose sequence is known but 3D structure is unknown??

@muntasirkamal1112 2 жыл бұрын

C. elegans protein PGP-3

@mohsinahmed5509 2 жыл бұрын

Please help me for the question below... Methods of building 3D structure of a protein..

@nadataib348 4 жыл бұрын

Thank you very much, it is very interesting

@surbhikumari7401 4 жыл бұрын

Very helpful. Please do explain about ramachandran plot in SWISS MODEL or any other database.

@sanketbapat 4 жыл бұрын

You can check the video on Ramchandran plot in my videos

@nupurgupta3829 4 жыл бұрын

Does 56% of coverage of query sequence means that our given query sequence(unknown structure) has 56% similarity with known protein ID 6sI6??

@abirelbeji2111 4 жыл бұрын

Hello sir, I got all my templates withnegative QMEAN.. what should I do? taking the closest one to 0?

@vandanatandasi 4 жыл бұрын

hello sir, I tried to build a model as per your tutorial. even though the GMQE value is 0.72, the QMEAN value comes to -4.26? how to bring the QMEAN value near to 0? Kindly guide.

@zainabkhalid7040 4 жыл бұрын

well explained

@vasumathiselvaraj1755 4 жыл бұрын

Hello sir, can we build homomultimer or heteromultimer protien using swiss model??

@sanketbapat 4 жыл бұрын

Yes we can build

@vasumathiselvaraj1755 4 жыл бұрын

Thank you sir... And I have one more doubt about modelling. After building a model I find difficult in finding the binding site because it has 60% identity other sequences varies so the binding site residues are not similar. In that case how to identify the binding site sir???

@sanketbapat 4 жыл бұрын

@@vasumathiselvaraj1755 There are certain online binding site predicting software's available.

@nonee915 4 жыл бұрын

Is there no need to loop model and model evaluate ??

@sanketbapat 4 жыл бұрын

It does it in the back end, we don't need to manually add them.

@fahimalamnobel4789 4 жыл бұрын

sir, I do this but when I have gone for procheck analysis or other validation, I cannot do that, the servers shows the file size is too long. What should I do in that case??

@sanketbapat 4 жыл бұрын

Try this : omictools.com/protein-structure-validation-category

@JamilaJaved-f8q Ай бұрын

now there is no option of Qmean

@saptarshiroy87 4 жыл бұрын

If we have only genom sequence so from that how we can proceed homology modeling and fromation of protein structure

@sanketbapat 4 жыл бұрын

Genome sequence is huge, Genome consists of genes, The genes translate into amino acid sequence, Homology modeling could be performed for that sequence.

@saptarshiroy87 4 жыл бұрын

@@sanketbapat Yea sure, May be I am make it clear, that if i have a nucleotide sequence only so how I will go forword for homology modeling.

@saptarshiroy87 4 жыл бұрын

So I have to to blast ?

@sanketbapat 4 жыл бұрын

@@saptarshiroy87 Convert the nucleotide sequence into amino acid sequence using online tools.

@saptarshiroy87 4 жыл бұрын

@@sanketbapat thanks. your vedios is very help full. Ok from this vedio I learned about doking, can u make a vedio about simulation, and how receptor confermation change after binding a ligand with receptor. in this field. Thanks....