Hi Eric -
I remember that the "neighbor atom" distances would dynamically update, and even appear and disappear as your moving atom crosses the 3.2 A distance threshold to another atom. I don't remember if the regular "distance define" distances would do the same; I think not. I'm fairly sure that this still works - the last time I used O was about six months ago, and the O package I was using was from c. 2005. More on-topic, Coot seems to have a "dynamic distance" command (look under the "Measure" menu) which will do what you want. Hope that helps, Matt -- Matthew Franklin, Ph. D. Senior Research Scientist New York Structural Biology Center 89 Convent Avenue, New York, NY 10027 (646) 275-7165 _____ From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Eric Pettersen Sent: Tuesday, February 15, 2011 4:14 PM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] Model Building: continuous update of distances as fragment moved On Feb 14, 2011, at 4:01 PM, Paul McLaughlin wrote: In doing some model building I want to move a domain of a protein manually, as a rigid body, and see in real time continuous updates of some distances from points on the domain to the rest of the protein (we have cross linking data). I dimly remember being able to do with this O,at least a decade ago (probably more), but it doesn't seem to work in current versions (I have even dimmer recollections that this might have been a special feature of a particular graphics card in an SGI) In any event, does anyone know of anything that might allow us to do this? { I am not asking about computational ways of exploring alternate packing of the domain to satisfy distances ( I know about these) - rather we want to get a feel for what is possible by "seeing" it for ourselves). DIstance monitors in Chimera (www.cgl.ucsf.edu/chimera) automatically update as structures are moved. Possibly also of interest, Chimera can monitor steric clashes/contacts as structures are moved: http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/findclash/findclash .html --Eric Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu
