I have NOT removed the obsolete IDs. They are still there for backwards compatibility. I just moved them all to the last line so they are easily identified as such. After all, we are supporting old atom and residue names like A T G C in DNA, both 3' and 3* etc. Unless the same IDs are now used for non-carbohydrate groups (see below). That would lead to strange groups being taken as carbohydrate, which I think should not happen.
> ASF is N-GLYCOSYL CHAIN When was that? ASF, when I check in the PDB, says a totally different group. That's why I removed it. http://ligand-expo.rcsb.org/ld-search.html ASF = 3-(butylsulfonyl)propanoic acid NAM = NAPTHYLAMINOALANINE I haven't changed 12.0 yet, probably will do tonight. > I wonder how hard it would be to get the whole list of carbohydrates > from PDB. I guess that could be a long list.... Yes, it may well be. At least we should have the most common. Please check out the wiki page I put up yesterday for this. Particularly the cathegorized section, that's more helpful. > The reason to include them is that > "carbohydrates" is used in its more inclusive term, not just for > Cx(H2O)y. Right? No, I wasn´t that picky. For me, anything that goes in an oligosaccharide in a glycoprotein should be included (as it is part of the macromolecule). More those than ligands like lactose or cellotriose, which are fine. Anyone knows of other group IDs that should be added? Please email or use the Talk page for http://wiki.jmol.org/index.php/AtomSets/Carbohydrate ------------------------------------------------------------------------------ All of the data generated in your IT infrastructure is seriously valuable. Why? It contains a definitive record of application performance, security threats, fraudulent activity, and more. Splunk takes this data and makes sense of it. IT sense. And common sense. http://p.sf.net/sfu/splunk-d2d-c2 _______________________________________________ Jmol-developers mailing list Jmol-developers@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-developers
