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
--------------------------------------------------------------------- Gulshat Ibragimova, Ph.D. EMBL, Postfach 102209 69012 Heidelberg, FRG Tel: +49 (0)6221 387466, Fax: +49 (0)6221 387517