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I'm using gromacs version 4.0.5. My system is a double stranded DNA
(9 nucleotides), a bit modified (the DC3 terminal is replaced by
another one named C5l). When I try to convert the pdb file to a .gro
one, a message error appear, as follows:<br>
<i><br>
Fatal error:<br>
There is a dangling bond at at least one of the terminal ends and
the force field does not provide terminal entries or files.
Edit a .n.tdb and/or .c.tdb file.<br>
For more information and tips for troubleshooting, please check
the GROMACS<br>
website at <a class="moz-txt-link-freetext" href="http://www.gromacs.org/Documentation/Errors">http://www.gromacs.org/Documentation/Errors</a></i><br>
<br>
Can someone please help?? I was not able to find a solution....
Thanks in advance!!<br>
<br>
I attach the pdb file.<br>
<br>
Nuria Alegret<br>
University Rovira i Virgili (Spain)<br>
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