7 Jul
2009
7 Jul
'09
6:50 a.m.
Hello Steve,
A reply from a newbie as well :)
If I understood your question correctly you have more or less this situation:
TEMPLATE AAAAAAAAAA----------AAAAAAAAA SEQUENCE AAAAAAAAAABBBBBBBBBBAAAAAAAAA
If you use the FASTA sequence of your template with its own structure, it will build a complete structure with those sections modelled as loops. You just need to provide MODELLER with the template structure, it's sequence (with gaps in the missing regions), and the sequence of the full thing.
Best Regards,
João [ .. ] Rodrigues
(Blog) http://doeidoei.wordpress.com (MSN) always_asleep_@hotmail.com (Skype) rodrigues.jglm