Dear Rhys, My difficulty is, suppose I have 20 residues (just an example), the first 8 sidechains fit the dnsity, the last 8 fit the density, however for the middle 4 residues, the map can hold 5 sidechains or hold 3 sidechains, not exactly 4 sidechains. This is caused by the poor resolution. But my boss needs me to get a good fit. Can you give more advices? Smith
At 2015-04-01 13:01:38, "RHYS GRINTER" <r.grinte...@research.gla.ac.uk> wrote: >Hi Smith, > >What resolution are you working at and what kind of phases do you have >(experimental?, good/bad?)? >I've had the most success using the place helix function, then trimming it >back so it fits the denisty. Once the helix is place you can try rigid body >fitting it so it is orientated correctly for adding sidechains. >If your resolution and or phases are poor however it can be difficult to fit >fragments into density. > >Good luck, > >Rhys >________________________________________ >From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] On Behalf Of Smith Liu >[smith_liu...@163.com] >Sent: 01 April 2015 05:58 >To: CCP4BB@JISCMAIL.AC.UK >Subject: [ccp4bb] on building a helix fragment by coot > >Dear All, > >If I need to build a fragment of helix to a fragment of density by coot, >should I use baton build method or should I use place Helix here function? I >have tried both, but I find it is difficult to place the sidechains to the map >mosition which looks like where shold be occupied by the sidechains. > >I am looking forward to getting your message on how to correctly buld the >helix. > >Best regards. > >Smith > >
