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Figure 1

Figure 1. From: ExPASy: the proteomics server for in-depth protein knowledge and analysis.

The NiceProt view of a SWISS-PROT entry presents its contents in a user-friendly view. Links are provided to >70 databases, a user manual and other documents. NiceProt is also integrated with tools provided on ExPASy and other servers. Excerpts of the view of a sample entry are presented in this figure. A BLASTP similarity search against SWISS-PROT/TrEMBL/TrEMBLnew can be performed with a single click (button 1) on a very fast server (median request time: 6 s). BLAST parameters can also be adjusted by accessing the BLAST page (link 2), which provides a choice of BLASTP or TBLASTN over a choice of databases and subsections. The result page (inset 3) combines a BLASTP search with a motif search in the PROSITE profiles and Pfam HMM domain databases and displays a graphical overview of the matching regions both on the query and on the hit. From there, it is possible to browse matching entries, including splice variants; to rerun a BLAST search after masking regions that match PROSITE or Pfam domains in order to find weaker similarities in other regions and to perform multiple alignments of selected hit sequences.

Elisabeth Gasteiger, et al. Nucleic Acids Res. 2003 July 1;31(13):3784-3788.

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