[gmx-users] gromacs: pdb2gmx error

[venkatesh s]

Hi
      i got that error in the step of pdb2gmx what can i do
i read also
http://www.gromacs.org/Documentation/Errors#Residue_%27XXX%27_not_found_in_residue_topology_database
can any one tell exact reason and how i handle further
thanking you




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All occupancies are one
Opening force field file
/usr/local/gromacs/share/gromacs/top/oplsaa.ff/atomtypes.atp
Atomtype 1
Reading residue database... (oplsaa)
Opening force field file
/usr/local/gromacs/share/gromacs/top/oplsaa.ff/aminoacids.rtp
Residue 56
Sorting it all out...
Opening force field file
/usr/local/gromacs/share/gromacs/top/oplsaa.ff/aminoacids.hdb
Opening force field file
/usr/local/gromacs/share/gromacs/top/oplsaa.ff/aminoacids.n.tdb
Opening force field file
/usr/local/gromacs/share/gromacs/top/oplsaa.ff/aminoacids.c.tdb

Back Off! I just backed up topol.top to ./#topol.top.4#
Processing chain 1 'E' (603 atoms, 20 residues)
Identified residue DG2 as a starting terminus.
Warning: Residue MN1022 in chain has different type (Other) from starting
residue DG2 (DNA).
Identified residue DT20 as a ending terminus.
8 out of 8 lines of specbond.dat converted successfully

-------------------------------------------------------
Program pdb2gmx, VERSION 4.5.5
Source code file: resall.c, line: 581

Fatal error:
Residue 'DG' not found in residue topology database
For more information and tips for troubleshooting, please check the GROMACS
website at http://www.gromacs.org/Documentation/Errors
-------------------------------------------------------



-- 
*S.VENKATESH,*
II M.Sc Bioinformatics,
Alagappa University,
Karaikudi-630003
Tamil Nadu,
India

Mobile Phone:- 9486494616
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