celebrate the completion of the Arabidopsis genome sequence, the Ababidopsis membrane
protein library has had a major update! Details below...
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 Arabidopsis
thaliana. 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 email@example.com.
More InformationMore information about
how AMPL was created is here. We hope you find the site useful.
11.2.01 - The alignment and matrix generating program bl64.c
has been modified to account for comparisons of short sequences with long sequences.
The details are here. Links to MIPS were added
for the Atxgxxxx accession numbers and other links to public databases were improved.
Links 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:firstname.lastname@example.org">email.
Finally, with each sequence, TMS domains predicted by HMMTOP are now highlighted
24.1.01 - AMPL gets a major upgrade 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.
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.
6.11.00 - Some optimization was
done on the alignment program bl64.c. Thanks to Urs
Hochstrasser for stopping by and helping with the revision. The alignment results
are the same, but the program runs much faster.
2.11.00 - Added links to NCBI
for each sequence. Amino acid numbers were n+1 for each sequence and this was
1.11.00 - Family names in the enzymes for cell wall biosynthesis
category were updated.
27.10.00 - Calcium pump family names changed.
- AMPL on line, dataset from Oct. 15, 2000.