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MD simulations / Gromacs missing ' P ' atom

« on: May 27, 2024, 04:03:40 am »

When I used "find_pair 0.pdb | analyze" to analyze the Gromacs simulation output pdb file, I got the following tips, whether this affects the result and how I should solve the problem.

'''
handling file <0.pdb>

Time used: 00:00:00:00
missing ' P  ' atom : residue name ' DG', chain  , number [   1 ]
missing ' OP1' atom : residue name ' DG', chain  , number [   1 ]
missing ' OP2' atom : residue name ' DG', chain  , number [   1 ]
missing ' P  ' atom : residue name ' DG', chain  , number [   1 ]
missing ' OP1' atom : residue name ' DG', chain  , number [   1 ]
missing ' OP2' atom : residue name ' DG', chain  , number [   1 ]
missing ' P  ' atom : residue name ' DG', chain  , number [   1 ]
missing ' P  ' atom : residue name ' DG', chain  , number [   1 ]

Time used: 00:00:00:01
'''