Use the new version of smart. It's faster and has more domains.
S M A R T Simple Modular Architecture Research Tool(V3.0)
Reference: Schultz, J., Milpetz, F., Bork, P., and Ponting, C.P. (1998) "SMART, a simple modular architecture research tool: Identification of signalling domains" Proc. Natl. Acad. Sci. USA 95, 5857-5864.
We upgraded SMART to version 3.1
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The new version is located at http://smart.embl-heidelberg.de
Comparative Sequence Analysis 
