Arabidopsis Membrane Protein Library

<BODY BGCOLOR="ffffff"> <center><IMG SRC="info/Titlepic.gif" WIDTH="600" HEIGHT="100"></center><BR><BR><BR> <table> <tr VALIGN=center WIDTH="100%"><H2><b><FONT COLOR="#FF3366">Membrane Protein Families</FONT></b><BR> <BR> <FONT SIZE=2 FACE="Arial,Helvetica"> </font></h2><TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf2.htm" TARGET="main">ABC Transporters</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf7.htm" TARGET="main">Antiporters</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf6.htm" TARGET="main">Aquaporins</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf9.htm" TARGET="main">Cell Wall<br>Biosynthesis</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf12.htm" TARGET="main">Chloroplast and<br>Mitochondria</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf8.htm" TARGET="main">Lipid Metabolism</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf5.htm" TARGET="main">Inorganic Solute<br>Cotransporters</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf3.htm" TARGET="main">Ion Channels</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf4.htm" TARGET="main">Organic Solute<br>Cotransporters</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf1.htm" TARGET="main">Primary Pumps (ATPases)</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf10.htm" TARGET="main">Miscellaneous</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/sf11.htm" TARGET="main">Unknown Function</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF="atprotdb/fam0.htm" TARGET="main">Singletons<br>349 sequences</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF = "info/aboutamp.htm" TARGET="main">About AMPL</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF = "info/links.htm" TARGET="main">Links</A></DIV></TD></TR> <TR><TD><DIV CLASS="navi"><A CLASS="navi" HREF = "welcome.htm" TARGET="main">Back to<br>Front Page</A></DIV></TD></TR> </table><BR><BR> <H3>Welcome!</H3><p> To celebrate the completion of the Arabidopsis genome sequence, the Ababidopsis membrane protein library has had a major update! Details below... <p> The Arabidopsis membrane protein library is a collection of polytopic membrane protein sequences (containing two or more predicted membrane spanning domains) from the model plant <I>Arabidopsis thaliana</I>. The protein sequences have been clustered into families based on sequence homology and the families have been assigned to functional categories where possible. However, many of the families do not have an associated function - these are located under the heading "Unknown Function". If you want to upgrade your favorite protein from the Unknown or Miscellaneous categories just let me know. You can email me at <A HREF="mailto:jward@tc.umn.edu">jward@tc.umn.edu</A>.</P><p> <H3>More Information</H3><A HREF = "info/aboutamp.htm">More information about how AMPL was created is here.</A> We hope you find the site useful. <p> <H3>News</H3><p> 11.2.01 - The alignment and matrix generating program <A HREF="info/bl64.c">bl64.c</A> has been modified to account for comparisons of short sequences with long sequences. The details are <A HREF="info/details.htm">here</A>. Links to MIPS were added for the Atxgxxxx accession numbers and other links to public databases were improved. <A HREF="info/links.htm">Links</A> are now available (on the left side menu) to other plant membrane protein sites. If you want your site added, send me an HREF="mailto:jward@tc.umn.edu">email. Finally, with each sequence, TMS domains predicted by HMMTOP are now highlighted in blue. <p> 24.1.01 - <b>AMPL gets a major upgrade </b> with a current dataset from January 15, 2001. Transmembrane spanning domain prediction is now greatly improved due to the contribution of HMMTOP by Dr. Gabor E. Tusnady. Redundancy is much less now that we are using the publication release data from TIGR. And since the alignment program is running faster we included all proteins with two or more transmembrane spanning domains. <p> 20.11.00 - After discussion with Christophe Maurel, we decided to move a small family of four sequences that was listed on the "Aquaporins" page. If you are looking for the small family it is now listed at the top of the "Unknown Function" page. <p> 6.11.00 - Some optimization was done on the alignment program <A HREF="info/bl64.c">bl64.c</A>. Thanks to Urs Hochstrasser for stopping by and helping with the revision. The alignment results are the same, but the program runs much faster. <p> 2.11.00 - Added links to NCBI for each sequence. Amino acid numbers were n+1 for each sequence and this was corrected. <p> 1.11.00 - Family names in the enzymes for cell wall biosynthesis category were updated. <p> 27.10.00 - Calcium pump family names changed. <p> 26.10.00 - AMPL on line, dataset from Oct. 15, 2000. <center><script></script><noscript><a target="_top" href= "http://www.UltimateCounter.com/link.cgi?id=363969&nojs=1"> <img src = "http://www.UltimateCounter.com/count/count.cgi?363969"> </noscript> </a></center><a target="_top" href= "http://www.UltimateCounter.com/link.cgi?id=363969&nojs=1"> </a> </BODY>