AMBER NetCDF file for Simulation

From: Aashish Bhatt (
Date: Wed Jun 06 2018 - 07:33:10 CDT

Dear Sir

I have problem for starting simulation.I have created biological assembly
of protein via the help of pymol.Due to bigger size of protein i have
created topolgy*(file.prmtop)* and*(NetCDF file or binary formatted
file) *instead of coordinate(*file.inpcrd*) file in amber 17.

In vmd i have upload and topology>Netcdf>Savecoordinate>*file.pdb*
and giving path but in minimization system is burst.

I have 2 question how can i start simulation giving path to the
If i used VMD approach (mentioned above) then how can correct this

Aashish Bhatt

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