I have installed gromacs version 4.5.3. when I want to use pdb2gmx for
generating .top and .gro files for 1000 argon atoms, in topology file I have
seen another atom O with mass 1.48594e-41 as below I do not know what to
do.I do not confront with such problems when I had 4.0.7 version of gromacs.
please help me. also I have used gromos43a1 force feild.
[ moleculetype ]
; Name nrexcl
Other_chain_A 3
[ atoms ]
; nr type resnr residue atom cgnr charge mass
typeB chargeB massB
; residue 1 GAS rtp GAS q 0.0
1 AR 1 GAS AR 1 0 1 ; qtot
0
; residue 2 GAS rtp GAS q 0.0
2 O 2 GAS AR 2 0 1.48594e-41 ;
qtot 0
; residue 3 GAS rtp GAS q 0.0
3 O 3 GAS AR 3 0 1.48594e-41 ;
qtot 0
; residue 4 GAS rtp GAS q 0.0
4 O 4 GAS AR 4 0 1.48594e-41 ;
qtot 0
; residue 5 GAS rtp GAS q 0.0
5 O 5 GAS AR 5 0 1.48594e-41 ;
qtot 0
; residue 6 GAS rtp GAS q 0.0
6 O 6 GAS AR 6 0 1.48594e-41 ;
qtot 0
; residue 7 GAS rtp GAS q 0.0
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