Hi, If you could send in stereo mode of the density you want to get suggestion, it will be convenient for the well trained eyes.
S.Jayashankar Research Student Institute for Biophysical Chemistry Hannover Medical School Germany. On Tue, Feb 10, 2009 at 3:16 PM, <ar...@xtals.org> wrote: > Hi, > > It could be all sorts of things, but the one that for some reason is stuck > in my mind is isopentenyl phosphate (phosphate, not pyrophosphate!). Of > course w/o seeing the density in 3D this is just a guess. > > Artem > > > Dear All, > > > > When I was refining my structure, I found some unmodeled blobs, shown as > > attached images (contoured at 3 sigma for Fo-Fc, Rfree 0.21 and Rfactor > > 0.18, refined to 1.9 angstrom ). > > > > The protein was expressed in E.coli and purified by nickel column and gel > > filtration, both in tris buffer. The crystallization condition has 2 M > > ammonium sulfate and 0.1 M sodium acetate. > > > > The lower part looks like a sulfate group, which is held by one Arg, one > > his, one lys and one asn. The latter three residues are from another > > asymmetric unit. > > > > The other end of the small molecule is stunk by the rings of Tyr and Phe. > > It > > also interacts with the OH group of another tyr and one water molecule. > > > > Is there a program can build small molecule models according to the > > densities? Or could anyone tell what it might be from the density? > > > > Thanks a lot! Any suggestions will be appreciated! > > > > Mengxiao > > >
