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How do I install AutoDock on Linux and Mac OS X? [1%] by morris, 2010-08-26 09:56
I've downloaded the tar.gz file containing the AutoDock and AutoGrid executables. How do I install them?
Where do I set the AutoDock 4 force field parameters? [1%] by morris, 2007-07-26 19:11
Where can I see or change the values of the van der Waals parameters, hydrogen bonding parameters, and/or atomic solvation parameters ? Where can I see which ...
Obtaining AutoDock3 [1%] by morris, 2009-05-18 15:40
How to obtain AutoDock, and information on supported platforms.
How to use this resource [1%] by morris, 2007-05-02 16:16
A brief description of how you use and contribute to the Help Center.
How do I search the ADL (AutoDock mailing list) archives? [1%] by morris, 2007-04-26 19:47
I want to search the ADL (AutoDock mailing list) archives. How do I do it?
How do I join the ADL (AutoDock mailing list)? [1%] by morris, 2007-04-26 19:48
I've heard there is a mailing list for AutoDock, called "ADL". How do I join?
How do I report a bug? [1%] by morris, 2007-04-26 15:48
Something didn't work as I expected, when using AutoGrid, AutoDock or ADT. How should I report a bug?
Olson Laboratory, TSRI [1%] by morris, 2007-05-08 11:35
This is the location of the Olson Laboratory, also known as the "Molecular Graphics Laboratory".
ZINC [1%] by morris, 2007-04-26 13:52
ZINC is a free database of commercially-available compounds for virtual screening, and a great source of input small molecules for AutoDock. ZINC contains over ...
AutoDock 4 will be distributed under the Gnu GPL [1%] by morris, 2007-05-04 10:44
A message from Prof. Arthur J. Olson.
Successfully Docking to Proteins with Metal Ions [1%] by morris, 2007-05-04 10:45
Many enzyme targets have metal ions in their active sites that play key roles in substrate binding and catalysis. A recent paper in Proteins investigated how ...
What is the format of a PDBQT file? [1%] by morris, 2007-04-11 16:26
I've heard that AutoDock 4 uses PDBQT formatted files for the receptor and the ligand. What is the format of a PDBQT file?
Can AutoDock be used for "Blind Docking"? [1%] by morris, 2007-04-02 16:41
Can AutoDock be used when the structure of the ligand and the protein are both known, but the location of the binding site is unknown?
How do I download ADT (AutoDockTools)? [1%] by morris, 2007-03-27 10:53
I have downloaded AutoDock, but it does not include ADT (the graphical user interface, also known as AutoDockTools). How do I download ADT?
What are the commands to start AutoGrid 4 and AutoDock 4? [1%] by morris, 2007-03-27 10:41
I have downloaded AutoDock 4. How do I start AutoGrid 4 and AutoDock 4 from the command line?
What are the commands to start AutoGrid 3 and AutoDock 3? [1%] by morris, 2007-03-27 10:41
I have downloaded AutoDock 3. How do I start AutoGrid 3 and AutoDock 3 from the command line?
Is there a way to save a protein-ligand complex as a PDB file in AutoDock? [1%] by morris, 2007-03-25 23:14
I have completed my dockings of a ligand to a protein. Is there a way to save a protein-ligand complex as a PDB file in AutoDock?
How do I visualise the docking results in the AutoDock log file? [1%] by morris, 2007-03-24 16:49
I have finished my docking with AutoDock, and I have a DLG (docking log file): how do I visualise the results?
How can I learn more about how to use Cygwin/Linux/Mac OS X? [1%] by morris, 2007-04-26 20:01
AutoDock and AutoGrid run on UNIX systems like Cygwin, Darwin, Linux, and Mac OS X. I'm unfamiliar with using the command line in these operating systems. How ...
How do I download AutoDock? [1%] by morris, 2007-05-07 15:40
What do I have to do download AutoDock?
How do I evaluate AutoDock's clustering results? [1%] by morris, 2007-03-19 22:23
If I have more than one cluster after doing conformational cluster analysis, which one do I choose?
Desolvation Free Energy Term in AutoDock 4 [1%] by morris, 2007-03-23 17:43
This page summarizes the AutoDock 4 desolvation free energy term, which is based on new atomic solvation parameters which depend on the absolute partial charge ...
AutoDock is the most cited docking software [1%] by morris, 2007-05-04 10:44
A recent publication in Proteins compared the number of citations of 22 different docking programs using the ISI Web of Science; AutoDock was the most cited, ...
Presentation: Using AutoDock 4 with ADT (Handouts) [1%] by morris, 2008-05-13 18:29
Presentation: Using AutoDock 4 with ADT (Handouts)
Using AutoDock 4 with AutoDockTools [1%] by morris, 2007-04-26 09:19
This tutorial teaches you how to use AutoDockTools to set up AutoGrid 4 grid map calculations, how to set up AutoDock 4 dockings, and how to analyse your ...
AutoDock 3 User's Guide [1%] by morris, 2006-08-28 18:43
This is the PDF version of the AutoDock 3 User's Guide.
AutoDock 3 User's Guide [1%] by morris, 2006-08-28 18:43
This user guide describes in detail, the theory behind AutoDock, the DPF keywords, example DPFs, and how to get started using AutoGrid and AutoDock. It is ...
How to Unsubscribe from ADL [1%] by morris, 2007-05-02 16:10
How to Unsubscribe from ADL, the AutoDock Mailing List
How to Subscribe to ADL [1%] by morris, 2007-05-02 16:10
How to Subscribe to ADL, the AutoDock Mailing List.
Using AutoDock for Virtual Screening [613 KB, PDF] [1%] by morris, 2006-08-26 00:19
Using AutoDock for Virtual Screening -- step-by-step instructions.

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