GROMACS version:any
GROMACS modification: Yes
are there any alternative for prodrg server?
Use ATB. One should never use PRODRG; in fact, the original author took it offline for a time (and may still have it down) because it was only ever intended for crystal refinement, not MD simulations. There is a major bug in PRODRG related to charge assignment that renders it inappropriate to use for any serious simulation work.
Thanks for your reply. Can you provide any tutorial for using ATB.Can you inform me how to calculate net charge of a particular molecule ?are there any software available for that?
you should know that based on the molecules that you are working with