Hi Jayant,
You are probably seeing the effect of the clipping planes.  One way to adjust their positions is to use the  Side View (Favorites...Side View) - drag the vertical lines. 
I hope this helps,
Elaine

On Oct 17, 2006, at 12:03 PM, jayant_jacques wrote:

Hi!
I thank chimera users for answering and helping me in fitting my protein into EM Map.
I have a small problem. When I rotate the protein, portions of the map and protein come into view and dissappear. I am not able to figure out how to turn off this feature in chimera! I would be grateful if told how to turn off this feature.
Thanks
Jayant

Jayasundar Jayant James
Postdoc,
Department of Veterinary and Comparative Anatomy, Pharmacology and Physiology(VCAPP), Washington state university, Pullman 99164-6520, USA.
http://www.chick.com/reading/tracts/0001/0001_01.asp
Phone office:335-5937, Cell:1-509-432-5790

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-----
Elaine C. Meng, Ph.D.                          meng@cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                     http://www.cgl.ucsf.edu/home/meng/index.html