From: Teletchéa Stéphane (
Date: Fri Nov 21 2003 - 03:57:04 CST

While i'm at asking things ...

Some amber nucleic names are of the style :
X5/X3 or DX5/DX3 or RX5/RX3 with X=A,C,G,T/U
to indicate it is a 5' residue or a 3', and even if it is a deoxy (D) or
ribonucléotide (R).

VMD does not recognize them so the residue numbering starts at 0 instead
of 1 : Where i should have G6 for example, i get G5, because T5 is
recognized as 0 instead of 1.

I suppose there is an easy way to add this atoms into the nucleic
selection also (they are not highlighted when you use this option) but
where can i modify it ?

Is it possible to modify it into a reference file, or do i need to
charge the source code ?

Thans in advance,


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