[Chimera-users] coordinates

hsosa at aecom.yu.edu hsosa at aecom.yu.edu
Thu Jan 24 19:54:06 PST 2008


I am trying to rotate  a molecule  around a  3D density map.  I had 
already saved the coordinates of the molecule relative to the map. 
However if I rotate the pdb file (creating a new pdb file with the 
rotated molecule)  by rotating the coordinates around the origin (0,0,0) 
the new molecule is rotated around a a center that does not coincide 
with the center of the map.
So I am confused about what are the relative positions of  the origin 
for the map and pdb file.  If I have an atom with pdb coordinates  0,0,0 
should this  atom appear at the center of   the density map ?.



Hernando Sosa
Dept. of Physiology and Biophysics
Albert Einstein College of Medicine
1300 Morris Park Av.
Bronx NY 10461
phone	(718) 430-3456
FAX	(718) 430-8819
email	hsosa at aecom.yu.edu

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