[gmx-users] No such moleculetype NA+
shikha agarwal
shikhaiiitabi at gmail.com
Sun Dec 26 07:56:16 CET 2010
hello ,
this is my ions.itp file for gromos53a6 forcefield
[ moleculetype ]
; molname nrexcl
CU1 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 CU1+ 1 CU1 CU 1 1 63.54600
[ moleculetype ]
; molname nrexcl
CU 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 CU2+ 1 CU CU 1 2 63.54600
[ moleculetype ]
; molname nrexcl
ZN 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 ZN2+ 1 ZN ZN 1 2 65.37000
this is my ions.itp
[ moleculetype ]
; molname nrexcl
MG 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 MG2+ 1 MG MG 1 2 24.30500
[ moleculetype ]
; molname nrexcl
CA 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 CA2+ 1 CA CA 1 2 40.08000
[ moleculetype ]
; molname nrexcl
NA 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 NA+ 1 NA NA 1 1 22.9898
[ moleculetype ]
; molname nrexcl
CL 1
[ atoms ]
; id at type res nr residu name at name cg nr charge mass
1 CL- 1 CL CL 1 -1 35.45300
for adding ions I used this command ...
genion -s ions.tpr -o system_solv_ions.gro -p grompp.top -pname NA+ -np 11
-nname CL-
now when I m doing EM then getting this error
grompp -f minim.mdp -c system_solv_ions.gro -p grompp.top -o em.tpr
Fatal error:
No such moleculetype NA+
help me !
regards:
shikha
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