[gmx-users] RNA problem
ksr at chemistry.umass.edu
Thu Jan 6 20:39:05 CET 2005
I posted this about three hours ago and have not seen in show on the
list, so here it goes again...
I have a problem running pdb2gmx on a .pdb file that contains both RNA
and protein. The command returned the following error, "Residue 'U' not
found in residue topology database". I opened the ffG43a2.rtp file and
the ribonucleotides were named ADE, GUA, CYT and URA, while they were
named as A, G, C, and U in the .pdb file. I edited the .rtp file,
changing the ribonucleotide names to those in the .pdb file. Rerunning
pdb2gmx resulted in the same error.
Seems like this should be simple, however...
Thanks as always,
K.S. Rotondi Ph.D.
The Gierasch Laboratory
Department of Biochemistry and Molecular Biology
University of Massachusetts-Amherst
If there's a solution, why worry? If there's no solution, why worry?
The Dali Lamma
More information about the gromacs.org_gmx-users