Well, in fact, B-DNA built with coot is slighlty C2*-endo and markedly C3*-exo. In comparison a B-DNA built with X3DNA is markedly C2*-endo. See the attached figures. I agree with Maia that this is what I would have expected. Perhaps Paul can tell us where does coot take the "ideal" values from?<br>
<br>Cheers,<br><br><br>Miguel<br><br><div class="gmail_quote">2008/10/25 chern <span dir="ltr"><<a href="mailto:chern@ualberta.ca">chern@ualberta.ca</a>></span><br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<div bgcolor="#ffffff">
<div><font face="Arial" size="2">Hi all,</font></div>
<div><font face="Arial" size="2">does anybody know why coot and sybil (and may be
others that I don't know about) generate an ideal dna with C3*-exo puckers
instead of C2*-endo, as text books say.</font></div>
<div><font face="Arial" size="2"></font> </div>
<div><font face="Arial" size="2">maia</font></div></div>
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