On Tue, Jun 19, 2012 at 8:35 AM, RHYS GRINTER <r.grinte...@research.gla.ac.uk> wrote: > There's no significant difference between the high res and low res proteins > in the shared region (amino acid 38+) (r.m.s.d 0.46 A), and the while there > is broken density for the first 38aa from the full length data it's too poor > to model into. > > I want to present a figure which shows the density corresponding to the first > 38aa and where that fits with the rest if protein molecule. What I'm unsure > of it whether I will be required by the journal to submit a model from the > lower resolution data to the PDB in order to present this figure. Bearing in > mind the density doesn't allow any additional residues to be modelled > compared to the high res. structure.
This may be true today, but there is no guarantee that it will still be the case in five years, or ten, or however long it takes for the software to improve. I'd argue that anything you illustrate in the paper should end up in the PDB anyway, but if there is any chance that someone could improve on your structure in the future and possibly learn something new as a result, it's worth depositing for that reason as well. Otherwise the data will probably be lost, and we'll never know if those extra residues could have been modeled. (Although I suspect that it would be more helpful if the images were also available, instead of having to start from the processed data.) -Nat
