Weird. It's pretty much exactly what a nonbranched sugar (triose, in this case) would look like.
were the dimensions consistent with three sugars? were there any collisions with backbone or side chains inside/near the mystery density? It really looks like maltotriose... is the protein a sugar binder by any chance? Artem On Thu, Oct 27, 2011 at 8:46 PM, Jacob Keller < j-kell...@fsm.northwestern.edu> wrote: > Blob is gone--something funny happened, I guess. I went back to using > the original mtz from scala, removed and replaced a bunch of waters, > and no more worm! I can't really figure it out, and wish I knew > exactly what happened, but I think I am just going to non-chalantly > move along. > > Jacob > > > On Thu, Oct 27, 2011 at 8:41 PM, Yuri Pompeu <yuri.pom...@ufl.edu> wrote: > > Jacob, > > By simply looking at the figures you show, it does look like you have > some type of long, maybe polymeric, molecule bound. > > With that being said: > > 1- It is in the symmetry axis so maybe be a little noisy there > > 2-If you are in doubt about it being real or not check the density and > how it fits into your protein and (symm. related neighbours of course). If > the desity appears to be in position for some real interactions- i.e, there > are some peaks at H-bond distances of polar groups etc...- it may be real. > If its all random and through your protein atoms, probably not > > Keep in mind alternate conformers.... > > HTH > > > > > > > > -- > ******************************************* > Jacob Pearson Keller > Northwestern University > Medical Scientist Training Program > email: j-kell...@northwestern.edu > ******************************************* >
