Hi, everyone. I am simulating DMSO. At fisrst ,bond parameters contain two c-c bonds,and c-o bond ,which actually not in existence. But gmx 's force field ffg53a6 documents in top directory defines these bonds. When running mdrun , system reminds "segmentation default". then i get these virtual bond away , since that mdrun is ok !
Can anyone tell me why gmx define these bonds (ie. C-O bond ,C-C bond)? And has eliminating these bonds effects on simulating result? Any suggestion is appreciated.
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