I-TASSER | Protein Modeling | Intro & Homepage | Lecture 6 Part 1 | Dr. Muhammad Naveed

[@shoaibrao8656]

A.A sir g im a student of ms biotechnology i want to study 4(HIO)protein..kindly help me how can i study this protein

[@virendratiwari407]

sir mujhe human pancreatic alpha amylase and human small intestinal alpha glucosidase protein ki modeling sikhni hai

[@ayeshamalik4679]

What are charactestics of 3D protein models?Are the protein models different in different plant species of family lamiaceae? If protein model is different then expain why?

[@Prof.Dr.MuhammadNaveed]

its depend upon template and protein primary sequence if the amino acid sequence is changed in each protein of the family then possible template also changed and will predict separate model for each but if not much variation in sequence then might be same model

[@ayeshamalik4679]

If protein model is different in different species then they have different C score values and different functioning?

[@ayeshamalik3030]

if variation occur in amino acid sequences of different species of plant family then I - TASSER built different protein models?

[@ayeshamalik3030]

if same protein for different plant species was used and amino acid sequence is different in different plant species this lead to different protein model please explain this?

[@ayeshamalik3030]

if i have used same protein for different plant species but amino acid sequence is different in different plant species then I TASSER built same protein model or different? if primary protein sequence is changes then template is also changed.

[@ayeshamalik4679]

What are the characterstics of 3D protein models? Are protein model different in different species protein used was alanine to build model so i want to ask that can I discuss general characterstics of 3D protein model or discuss characterstics of alanine?

[@ayeshamalik4679]

The same protein for all different plant species but amino acid sequence is different in different species can lead to different protein models due to sequence variation? This point I understand is it correct?

[@Prof.Dr.MuhammadNaveed]

YUP

[@ayeshamalik4679]

How we know that protein model is different in I TAsser for different species?

[@beenishrafique2795]

Itasser predict secondary or tertiary structure of protein?

[@mriganka7331]

Sir, could you please make tutorial video on single template protein modelling prediction using modeller? Thanks

[@Prof.Dr.MuhammadNaveed]

Yes, sure

[@ayeshamalik4679]

My question is that we compare the teo plants with 5 or 6 different amino acid changes with each other than I tasser built different model?

[@Prof.Dr.MuhammadNaveed]

yes but depend upon structure difference

[@zainiiBee]

is this for Ab-initio modelling? Sir, can you please make a complete tutorial for Ab-initio modelling when the query sequence has no significant homology pdb structure.

[@Prof.Dr.MuhammadNaveed]

sure

[@ayeshamalik4679]

What statistics or statistical software is used to test the substitution pattern estimatiON, Tajimas test pairwise distance in MEGA7?

[@Gautamkumar-om7im]

Sir make a video on Ramachandran plot,how to obtain this plot and its analysis

[@Prof.Dr.MuhammadNaveed]

Already done kzbin.info/www/bejne/n2aopKWMr6h4e8U

[@ayeshamalik4679]

What statistical software used to test the substitution pattern in phylogeny and tajimas test?

[@iqraazam9508]

Kindly send link of this website

[@ayeshamalik4679]

What statistics is used to test the results of RAMPAGE?

[@ayeshamalik4679]

I have used same rps14 protein to construct the protein model but protein model will be different in different

[@ayeshamalik4679]

If genetic diversity is low then what does it mean?

[@tahirhassaan405]

Please explain the process of novel protein structure prediction

[@Prof.Dr.MuhammadNaveed]

sure

[@ayeshamalik4679]

What is template in I TASSER?can I tasser compare our protein to the template? If primary amino acid sequence is changed then how can it change the template?

[@Prof.Dr.MuhammadNaveed]

Template made on the base of your query protein as its worked on the base of homology modelling

[@sabahafeez6503]

Appreciated!!

[@Prof.Dr.MuhammadNaveed]

Thanks alot

[@ayeshamalik4679]

Why protein models are different in different species

[@Prof.Dr.MuhammadNaveed]

sequences variations

[@ayeshamalik4679]

I have constructed protein model of lamiaceae by I tasser and I want to know why protein model different for different plant species of lamiaceae?

[@sujhihope]

because of disallowed region.Higher the disallowed region higher the chances of bad protein folding which in turn results in different protein structure for different species

[@ayeshamalik4679]

If we have rps 14 protein for all different plant species of family lamiaceae and amino acid sequence is different in different species then is I tasser built same protein model or different ?please explain this

[@Prof.Dr.MuhammadNaveed]

depends upon sequence variation if minor difference then same but if vary most then different model

[@ridazaineb2731]

Sir can we submit FASTA sequence of protein from Genbank or we have to necessarily pick the sequence from Expasy translated protein?

[@Prof.Dr.MuhammadNaveed]

You just need protein sequence in FASTA. No matter from where it is.

[@ayeshamalik3030]

if 5 or 6 amino acid change occur then protein model will be different in I TASSER?

[@Prof.Dr.MuhammadNaveed]

depend upon amino acids which are missing have role in protein structure or function

[@ayeshamalik4679]

The difference in protein models of different species was the C score value ?

[@jaid2956]

🏝🏝🏝

[@ayeshamalik3030]

Can I Tasser tells about the Characteristics of protein?

[@Prof.Dr.MuhammadNaveed]

Yes, you first run it then will discuss when got its results or watch this lecture part 2 where discussed all its results

[@rabiapervaiz9804]

👍👍

[@Universe_event_managment]

Totally time wasting video, nothing in this video about protein modeling, sirf bakvas kari hai bhar bharke.