I-TASSER | Protein Modeling | Intro & Homepage | Lecture 6 Part 1 | Dr. Muhammad Naveed
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- Опубликовано: 21 авг 2024
- I-TASSER (Iterative Threading ASSEmbly Refinement) is a hierarchical approach to protein structure and function prediction. It first identifies structural templates from the PDB by multiple threading approach LOMETS, with full-length atomic models constructed by iterative template-based fragment assembly simulations. Function insights of the target are then derived by re-threading the 3D models through protein function database BioLiP. I-TASSER (as 'Zhang-Server') was ranked as the No 1 server for protein structure prediction in recent community-wide CASP7, CASP8, CASP9, CASP10, CASP11, CASP12, and CASP13 experiments. It was also ranked as the best for function prediction in CASP9. The server is in active development with the goal to provide the most accurate protein structure and function predictions using state-of-the-art algorithms. Please report problems and questions at I-TASSER message board and our developers will study and answer the questions accordingly.
#zhanglab #ITASSER #Modelling
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?
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
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.
sure
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
Sir, could you please make tutorial video on single template protein modelling prediction using modeller? Thanks
Yes, sure
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?
yes but depend upon structure difference
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?
I have used same rps14 protein to construct the protein model but protein model will be different in different
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?
YUP
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?
If protein model is different in different species then they have different C score values and different functioning?
if variation occur in amino acid sequences of different species of plant family then I - TASSER built different protein models?
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.
Sir make a video on Ramachandran plot,how to obtain this plot and its analysis
Already done
ruclips.net/video/i5EsrVzCEEc/видео.html
How we know that protein model is different in I TAsser for different species?
Please explain the process of novel protein structure prediction
sure
Appreciated!!
Thanks alot
What statistics or statistical software is used to test the substitution pattern estimatiON, Tajimas test pairwise distance in MEGA7?
Itasser predict secondary or tertiary structure of protein?
sir mujhe human pancreatic alpha amylase and human small intestinal alpha glucosidase protein ki modeling sikhni hai
What statistics is used to test the results of RAMPAGE?
What statistical software used to test the substitution pattern in phylogeny and tajimas test?
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?
Template made on the base of your query protein as its worked on the base of homology modelling
Kindly send link of this website
Why protein models are different in different species
sequences variations
If genetic diversity is low then what does it mean?
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?
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
The difference in protein models of different species was the C score value ?
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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
depends upon sequence variation if minor difference then same but if vary most then different model
Sir can we submit FASTA sequence of protein from Genbank or we have to necessarily pick the sequence from Expasy translated protein?
You just need protein sequence in FASTA. No matter from where it is.
if 5 or 6 amino acid change occur then protein model will be different in I TASSER?
depend upon amino acids which are missing have role in protein structure or function
Can I Tasser tells about the Characteristics of protein?
Yes, you first run it then will discuss when got its results or watch this lecture part 2 where discussed all its results
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Totally time wasting video, nothing in this video about protein modeling, sirf bakvas kari hai bhar bharke.