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Example sentences for: expasy

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The molecular weight was calculated using the primary structure analysis program available from ExPASY proteomics tools.
The crystal structure of gp120 (1gcl) [ 13 ] was retrieved from the pdb ( http://www.rcsb.org) and the V3 loop, created by homology modeling {(based on the nmr structure of the V3 loop from 1ce4) using the SWISS-MODEL [ 24 ] automated comparative protein modeling server ( http://www.expasy.ch/SWISS-MODEL.html} was attached to the gp120 crystal structure using Quanta's protein design module.
A non-redundant protein sequence database comprised of Swiss-Prot and TrEMBL was also downloaded from ftp://ftp.expasy.org/databases/sp_tr_nrdband the data were parsed and stored in Sybase.
Potential post-translational modification sites and nuclear localization signals were identified using PROSITE and Psort programs, respectively www.expasy.ch.
For ease of illustration and to emphasize USM's general validity, the test dataset used to describe implementation of the algorithm consists of two stanzas of a Poem by Wendy Cope, "The Uncertainty of the Poet" [ 14 ] . In the Discussion section, USM was also applied to the DNA sequence of the threonine operon of Escherichia coli K-12 MG1655, obtained from the University of Winsconsin E. coli Genome Project http:/www.genetics.wisc.edu, and to its 5'3' first frame proteomic translation obtained by using SwissProt on line translator http://www.expasy.ch/tools/dna.html.