On Sun, Jul 5, 2009 at 6:55 PM, amrita bhu2005 <span dir="ltr"><<a href="mailto:amritabhu2005@yahoo.com" target="_blank">amritabhu2005@yahoo.com</a>></span> wrote:<br>
<div class="gmail_quote"><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><br>
Dear all,<br>
<br>
I want to know that by using biopython programming is it possible to extract chemical shift information of amino acidsfrom BMRB or Ref-DB or not.<br>
<br>
Thanks,<br>
Amrita Kumari<br>
Research Scholar<br>
IISER Mohali<br>
Chandigarh-160019<br>
INDIA<br>
</blockquote><div><br>You might take a look at CCPN. It has quite an extensive Python API for
reading many NMR formats ... you could probably use the standard Python
library urllib2 to pull down BMRB records (eg <a href="http://www.bmrb.wisc.edu/cgi-bin/explore.cgi?format=raw&bmrbId=6448">http://www.bmrb.wisc.edu/cgi-bin/explore.cgi?format=raw&bmrbId=6448</a> , where 6448 is the BMRB entry number) , then parse them with CCPN.<br>
<br><a href="http://www.ccpn.ac.uk/ccpn/software/downloads-v2/" target="_blank">http://www.ccpn.ac.uk/ccpn/software/downloads-v2/</a><br>
<br>Just a guess, but it looks like the BMRB ("nmrSTAR format") parser
can be found in the FormatConverter package, under:
ccpnmr/ccpnmr2.0/python/ccp/format/nmrStar<br><br>I haven't had a chance to use CCPN yet, but it appears to be maturing quite nicely.<br>
<br>Hope this helps,<br><br clear="all">Andrew Perry </div></div>