Dear Modellers,
what could be the best strategy for building models (especially when one
has to build lot of them -:)? The "search_sequence" procedure gives a list
of proteins with similar sequences. However, their structures are
generally misaligned. So this very diverse structural information might
lead to bad models. Perhaps, it would make sense to find out structural
relatives of the most identical protein (using the FSSP, at example) and
to use them for building models despite their (relatives') low sequence
similarity?
Thanking for any comments,
Gulshat
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Gulshat Ibragimova, Ph.D.
EMBL, Postfach 102209
69012 Heidelberg, FRG
Tel: +49 (0)6221 387466, Fax: +49 (0)6221 387517