HIV-1 (Notes) & DRUG DISCOVERY ANALYSIS TOOLS...

Env [Human immunodeficiency virus 1]

THERE IS 481 AMINO ACID IN GP120

THERE IS 481 AMINO ACID IN GP120 PROTEIN SEQUENCE, SO;

481 * 0.11 = 52.9 -----> 53 KDa .... IT MEANS THAT IT'S 53000 Dalton that looks completely IMMUNOGENIC !!!

71 to 414 aa is part of this main immunogenic sequence... and as we see the main parts which are outside of the surface and also not included in unavailable parts of sequences are prefered ... (IT'S JUST AN EXAMPLE FOR STUDENTS NOT ANYMORE!)

AFTER SELECTING THE BEST PART (BASED ON GREEN PARTS OF SEQUENCE ANALYSIS THAT PERFORMED ABOVE, NOW IT'S TIME TO CHECK FOR BEST

After putting the FASTA format on this webpage, you will find the results as the following:

By downloading AbDesigner HeatMap from the link that mentioned in result screen you will get the Java software for Ab design; It's better to download the output too. Finally, after opening the application which described, and opening the output in this application, you will find the best results for Ab targeting (THEORETICALLY!)

THE RED PARTS (between 71 - 400 aa); exactly 71 - 91 aa, looks the best part of targetting; because,

1- It's located on the surface;

2- it's almost available;

3- there is a fix sequence here;

4- Computationally and theoretically its "Ig-SCORE" is the highest among all other parts...

*** CHECK THE DRUG DISCOVERY ANALYSIS AND TOOLS, HERE

(https://omictools.com/drug-discovery-categor)

Thanks to Alexander S. Rose (University of California) & Andrew Miller (Harvard University); it's great job...

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