[gmx-users] Why there is no phosphorous atom in the "DA5" residue in dna.rtp

Tingguang.S tingguang.sun at gxust.edu.cn
Sat Apr 25 18:19:02 CEST 2020

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Dear all,


   When I generated the amber99sb force filed topology of a DNA molecule with gmx, a error code appeared: "Atom P in residue DA 1 was not found in rtp entry DA5 with 30 atoms". I tried to fix this but found there was no P atoms in all the 5' nucleic acid residues in dna.rtp.
   Can some one help me with this ?

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