[modeller_usage] General Homolgy question

["Yogesh Sabnis" <>]

Hello,

I have a general question on Comparative Protein Modeling.

Is the modeling of only the active site residues, having a seq. identity of
80% with another sequence of a 3D structure, better than modeling the entire
protein (seq. identity ~ 50%)?
What are the disadvantages of modeling only certain seqments of a protein,
active site mainly?
When is this desirable rather than modeling the entire protein?

Thank you.

Kind regards,
Yogesh

Yogesh Sabnis Ph.D
Dept. Medicinal Chemistry
Uppsala University
BMC, Box 574
Uppsala, SE-753 31
Sweden

Phone: 0046 (0)18 4715012
Fax: 0046 (0)18 4714474