From Autodock Vina FAQs (http://vina.scripps.edu/manual.html):
"Why am I seeing a warning about the search space volume being over 27000 Angstrom^3?
This is probably because you intended to specify the search space sizes in "grid points" (0.375 Angstrom), as in AutoDock 4. The AutoDock Vina search space sizes are given in Angstroms instead. If you really intended to use an unusually large search space, you can ignore this warning, but note that the search algorithm's job may be harder. You may need to increase the value of the exhaustiveness to make up for it. This will lead to longer run time."
you first increase spacing in grid box to 1 Angstrong before setting your search space in Autodock Vina since the unit for Autodock vina is 1Angstrong instead of 0.375 Angstrong for previous version.
Default spacing criterion in the AutoDock tools is 1point=0.375angstrom. Although one can change this value as per need, it is good idea to keep it unchanged. If one wish to mention grid size in AutoDock Vina (which is in angstrom), one can multiply the value 0.375 with suggested points to get space/size in angstrom. For example: In 40 points in AutoDock equals 40*0.375=15 Angstrom in AutoDock Vina.
I am also getting the same error while performing docking using autodock vina. Md. Arif Khan, what did you do to solve this?
Sabahuddin Ahmad, can you explain how should I enter grid parameters into config file so that this error can be overcome?
grid parameters:
size x = 38
size y = 38
size z= 38
center x = -5.278
center y = -8.012
center z = 8.578
Your help will be much appreciated.
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