Re: [ccp4bb] Jrh input Re: [ccp4bb] what to do with disordered side chains

2011-04-03 Thread John R Helliwell
Dear Ed, Many thanks for this careful explanation, which I appreciate. I realise in my own practise on such matters I have two situations :- (i) where, albeit limited, electron density evidence, coupled with chemical evidence, leads to an attempted model atomic fit but the B factors there sky roc

Re: [ccp4bb] Jrh input Re: [ccp4bb] what to do with disordered side chains

2011-04-01 Thread Ed Pozharski
Dear John, there may be reasons to disagree with both options. This has been a recurring discussion for many years, and in my mind the most convincing arguments for both sides are as follows: "Keepers": I know the side chain is there and the high ADP is a good approximation of reality. Removin

[ccp4bb] Jrh input Re: [ccp4bb] what to do with disordered side chains

2011-03-31 Thread Jrh
Dear Ed, Thankyou for this and apologies for late reply. If one has chemical evidence for the presence of residues but these residues are disordered I find the delete atoms option disagreeable. Such a static disorder situation should be described by a high atomic displacement parameter, in my vi