Bioinformatics |Homology Modelling For 3D Structure Prediction|Modeller9.25| Bioinformatics Tutorial

[@hamzaallal1867]

A really important tutorial.
Thank you very much.👋👋👋

[@bioinfoxpert]

You are welcome

[@douda9958]

Thank you very much for this wonderful and professional explanation. It helped me a lot. Thanks thanks

[@bioinfoxpert]

Glad it helped you. Please stay tune. We are bringing more videos for you

[@bioinfoxpert]

If you want to learn Bioinformatics from scratch then take our course on Udemy
Course Link: bit.ly/2SFH0fz
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[@bioinfoxpert]

Please like, share and subscribe to the channel

[@abubakarbashir7951]

Excellent, keep doing the great job.
Very informative.

[@bioinfoxpert]

Thanks,

[@rbnaeem6730]

Thank you so much for helping us...really helpful tutorial

[@bioinfoxpert]

My pleasure 😊

[@aniqamaryam4156]

your work is remarkable👍 sir

[@bioinfoxpert]

So nice of you

[@anisaaina4067]

can we do this on laptop?

[@arunpandiyanbtechbt896]

Sir one help, can you tell me how to obtain dope score graph for the result

[@arunpandiyan2302]

sir how to get dope graph

[@anisaaina4067]

i have another question, how to use Fe or any other metal on GROMACS.

[@bioinfoxpert]

It's easy just use charmm36 forcefield

[@Siddharthchawla003]

I have a query there is an error while running script 2. can you please help me resolve it

[@bioinfoxpert]

Can you please sned us query at our email

[@madasupavankumar8099]

Thanks a ton. Can you please give the link for selecting template after running script2

[@bioinfoxpert]

Dear Madasu Pavan Kumar, Many thanks for your comment. Sorry for being late. Can you please explain your question a bit. I am sorry i could not understand it properly. By the way, we have a one very interesting course available at udemy to learn bioinformatics. There is a good amount of information there. We hope you will like to join us. Please click below to get access www.udemy.com/course/learn-bioinformatics/?referralCode=35C6DA89E7B61CA56DCC

[@zarlishattique4167]

Hello, Sir can you please tell why we put pir_95 file as it is ? and without any modifications ?

[@bioinfoxpert]

It's modeller database

[@divyakuratkar9655]

Sir i have tried as shown in video
When i tried script1.py
It shows cannot open logfile script1.log : permission denied
Not understanding what's the issue

[@bioinfoxpert]

Please run the Modeller as adminstrator. You will not find any issue. We hope it will work for you

[@saurabhgupta6314]

excellent..really easy and accurate

[@bioinfoxpert]

Thanks Saurabh. Your appreciation means a lot to us.

[@bioinfoxpert]

If you want to learn Bioinformatics from scratch then take our course on Udemy
Course Link: bit.ly/2SFH0fz
The course is with 30 days Money Back Guarantee

[@ishanilahiri7387]

What are the test 1 and test 2 folders in the bin file? Do we need to make that too?

[@bioinfoxpert]

Thanks for your comments. These were just our folders there is no need to make these folders in your case.

[@bioinfoxpert]

If you want to learn Bioinformatics from scratch then take our course on Udemy
Course Link: bit.ly/2SFH0fz
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[@beingtechnical01]

Yeah boy.......Awesome 👌👌👌❤

[@bioinfoxpert]

Thanks Faizan

[@conitaconita2689]

why you chose tseq1 please explain in detail I am confused😥😥😥😥

[@sundassajid7450]

Jazakh Allah ☺️👌 great effort 👍

[@bioinfoxpert]

Thanks for liking

[@jawad7776]

Hi. Very good explanation. Can you paste all 5 python script files and other 2 files in description. So we can use for practice...or at least let us know from where i can find them..thanks

[@bioinfoxpert]

Thanks Jawad, we have just provided a google drive link to download all required files to run modeller in your system. Thanks for your valuable comment

[@bioinfoxpert]

If you want to learn Bioinformatics from scratch then take our course on Udemy
Course Link: bit.ly/2SFH0fz
The course is with 30 days Money Back Guarantee

[@zaibaimtiaz6399]

how can we get tseq1 ,2 a3 and 4 files

[@bioinfoxpert]

These are you templates. You can find the templates of your sequence using the BlastP from protein databank. We have explaind this phenomenon in tutorial

[@zaibaimtiaz6399]

@@bioinfoxpert sir m using scripts files u have provided in description......and i have downloaded templates from pdb.m using 10.1 version.....but afer clicking scripts1.py ile "script1.py
", line 23, in ?
aln.append(file='query.ali', alignment_format='PIR', align_codes='ALL')
File "C:\Program Files\Modeller10.1\modlib\modeller\alignment.py", line 78, in append
fh = modfile._get_filehandle(file, 'r')
File "C:\Program Files\Modeller10.1\modlib\modeller\modfile.py", line 80, in _get_filehandle
return File(fh, mode)
File "C:\Program Files\Modeller10.1\modlib\modeller\modfile.py", line 35, in __init__
self._file = _modeller.mod_file_open(filename, mode)
IOError: ope
it causes these errors can u help me m very thankful to u

[@jyotikathakur9448]

Which protein you used ? Protein name

[@bioinfoxpert]

We do not remember exactly now but i think its cox2

[@bioinfoxpert]

If you want to learn Bioinformatics from scratch then take our course on Udemy
Course Link: bit.ly/2SFH0fz
The course is with 30 days Money Back Guarantee

[@mehwishahsan2194]

Thank you. It was a great help. 💯

[@bioinfoxpert]

Glad it helped!

[@umary960]

Thank u sir

[@bioinfoxpert]

Welcome