Hi Fabian, I had failed to notice you are one of the ConSurf developers, so my reply focused more on what an outside user could do. However, if you are thinking of providing Chimera scripts from the server, that would be great!! If so, you probably do want discontinuous coloring with exactly the same colors and sets of residues, so that all the graphics programs would show the same thing. Thus the Chimera script should contain "colordef" to define the colors and "color" to apply them to the residues. There are different possibilities for specifying the residues in the color command, however. (a) simply specify the residues by their residue numbers, like in the Consurf rasmol scripts (b) use "alias" to name sets of residues and then specify the residues by the alias string (c) make an attribute definition file (this file is read using the command "defattr") and then specify residues by attribute value. Disadvantage is an extra file. Advantages are that the Chimera script could stay the same and only a new attribute definition file made for each structure, and that a user could later decide to use a different coloring scheme for the attribute. Both the normalized score attribute and the 1-9 category score could be assigned in the same file. I can provide more details on any of these if you would like. Sorry about the length of the previous mail - I was trying to cover all the possibilities since I wasn't sure what you wanted! Elaine ----- 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