[gmx-users] terminal phosphate residue for dna simulations

[Vedat Durmaz]

hi guys,

does anyone know about a way to simulate mono- or polynucleotides along 
with a 3' or 5' bound monophosphate using an amber force field like 
ffamber99sb?

i couldn't find any residue definition for a terminal phosphate group 
such as " P3' " or " P5' " (exemplarily). do they indeed not exist or am 
i just not able to search them?

thanks in advance & take care
vedat