I'm new to Bioinformatics and I need to perform docking studies for my work. Please share if you have the step by step protocol of Autodock or Hex or any other freely available tools.
Thanks
A SIMPLE CLICK BY CLICK PROTOCOL TO PERFORM DOCKING: AUTODOCK 4.2 MADE EASY FOR NON-BIOINFORMATICIANS
Authors
Syed Mohd Danish Rizvi, Shazi Shakil, Mohd Haneef
Publication date
2013/1/1
Journal
EXCLI JOURNAL
Volume
12
Pages
831-857
Publisher
EXCLI JOURNAL MANAGING OFFICE
At first you should watch video tutorial from youtube. There have all step by step explanation. you can also see Autodock vina....
Dear Roy,
Learning Autodock is not difficult, you need to look for its tutorial (http://autodock.scripps.edu/faqs-help/tutorial), these tutorials have all the information you are searching. For your specific molecule you just follow as mentioned in the tutorials.
If you dont want to do much effort you may use freely available online servers too for example: patchdock, docking server, swizz dock etc..
But for docking it is better you perform autodock run in comparision using any online server docking.
Dear Roy,
It is better if you follow the following link (http://autodock.scripps.edu/faqs-help/tutorial), this link have all the relevant tutorials that you are looking for. You need to follow these tutorials and learn the docking methods. These tutorials are divided in different categories may try the best fit for your work. One more thing, no one is able to tell you that what are the specific steps you have to run for the docking you need to do it yourself.
Moreover if you dont want to put much effort you may use online servers available: swizz dock, docking server, patch dock etc.
A SIMPLE CLICK BY CLICK PROTOCOL TO PERFORM DOCKING: AUTODOCK 4.2 MADE EASY FOR NON-BIOINFORMATICIANS
Authors
Syed Mohd Danish Rizvi, Shazi Shakil, Mohd Haneef
Publication date
2013/1/1
Journal
EXCLI JOURNAL
Volume
12
Pages
831-857
Publisher
EXCLI JOURNAL MANAGING OFFICE
Dear Roy
Follow below link:
http://www.excli.de/vol12/Shakil_23092013_proof.pdf
I suppose you have to start from http://autodock.scripps.edu/faqs-help/tutorial and http://autodock.scripps.edu/faqs-help/tutorial/using-autodock-4-with-autodocktools/2012_ADTtut.pdf
Go to the vina scripts research institute official website you can downloads Autodockvina Tutorial Manual that can helps you and also there are some videos of Autodock vina are available on Youtube its more helps you and molecular Docking.
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