Bioinformatics Methods in Identification Protein Function | Domains |Trans-membrane etc.,

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Published 2020-06-27

In this video we used multiple computational prediction tools to perform various protein sequence annotations such as Physio-Chemical Properties, Identification Domains, Transmemrane Regions Prediction, Secondary Structural Elements, Solvent Accessibility Surface Area etc.,

Input: You need provide only Single Letter Amino acid sequence in FASTA format.
Sequence Retrieval Databases :

www.ncbi.nlm.nih.gov/protein/
www.ensembl.org/
www.genome.jp/kegg/genes.html
www.uniprot.org/

Protein Sequence Annotation Databases
1. Physico-Chemical Properties Prediction Tools
web.expasy.org/protparam/
www.tulane.edu/~biochem/WW/PepDraw/index.html

2. Domain Prediction Tools
www.ebi.ac.uk/interpro/search/sequence/
smart.embl-heidelberg.de/
pfam.xfam.org/

3. Trans-membrane Prediction Tools
www.cbs.dtu.dk/services/TMHMM/
embnet.vital-it.ch/software/TMPRED_form.html

4. Secondary Structural Elements and Solvent Accessibility
www.cbs.dtu.dk/services/NetSurfP/
sable.cchmc.org/

5. Multiple Annotations Tools
www.predictprotein.org/home

All Comments (21)

@sivask537 3 years ago

Excellent... never though we can do so many things with protein sequence ..thank you sir great video ...
@gutterball10 2 years ago

Thanks for the lecture on these various tools. I found the transmembrane protein portion most useful. Just FYI: the Expasy data base transmembrane tool is going off line December 7 2021, according to the note left on that page.
@camila3843 3 years ago

Thank you so much for this video! It helps me a lot!
@ismaildin69 2 years ago

sir you are amazing and I appreciate your hardwork and feel great and very nice information you have shared us by how using the protein sequence of the genes.
@agriculturelk2551 1 year ago

Excellent tutorial. Thank you.
@amitgupta8736 2 years ago

Thanks a lot...for a such knowledgfull lecture 🙏
@benysmart1643 1 year ago

May ALLAH guide you to do the best..Thanks for sharing all this knowledge..very informative
@soras2327 2 years ago

Can you please make a video on phylogenetic tree building using Max LIKElihood approach on RaXml
@pradeepupadhyay8184 3 years ago

Great sir,,,,,
@taofiqsanjid9641 2 years ago

Thank you sir for this information
@ahsanullahunar9767 3 years ago

Thanks for sharing the knowledge.
@eminegulceozel 2 years ago

Thank you so much💐
@garimanagar2549 2 years ago

Very informative
@sushantkumar-qg8rd 3 years ago

Thank you so much sir giving a such knowledge
@basu9316 3 years ago

Liked ur videos sir...
@kavitapatel8131 1 year ago

hello sir, it will be a great help if you can show us how to make thousand peptide molecules and docked with any receptor, i am trying this from past 6 months and unable to do. i am trying to build peptide individually by openbabel (i have aa sequeneces, convert them in to fasta by putting sign > and the to pdb by open babel) and after making it is showing error during energy minimization.
@tanushriroy5992 1 year ago

Sir how can we find whether a protein is a glycoprotein or not?
@h.upekkhaabhayarathne2274 3 years ago

Is there any software to get few protein domain structures into one page nicely, in order to compare them easily
@agriculturelk2551 1 year ago

Can you suggest me a sample research paper?
@shikharani4973 3 years ago

can we draw 3d structure of predicted protein which has not been submitted in NCBI