Thanks, Bob As far as I've seen, for whatever reason the EBI PDBe people are doing changes in the CIF format of those files; in several respects they do not match their regular CIF files. They remove some fields and others change names. I talked to them and basically they say that's how it's going to be.
Regarding "biomolecule 1", you'd better talk to Jaime and Joel. What I've gathered is that biomolecule 1 is assigned automatically, there may be several of them, not the same, while this assembly has been hand-picked to be biologically reliable. So Jaime is hosting copies of the files in Proteopedia, and I'm helping in adapting Proteopedia scripts to handle those files as well as the classic pdb ones. For example, the nr. of models in a file, very easy to read from a pdb file, is harder or even absent is some mmCIF assembly files. Regarding the reordering on models, I noted that a 20-model pdb trimer becomes 60 models, and not always in the "logical" order, but I have not done a systematic analysis. Up to now, only that particular assembly file has shown problems with our Proteopedia scripts, in the initial "simplified model" rendering. Indeed, the "full model" rendering includes the DNA, and now I see why. ------------------------------------------------------------------------------ Site24x7 APM Insight: Get Deep Visibility into Application Performance APM + Mobile APM + RUM: Monitor 3 App instances at just $35/Month Monitor end-to-end web transactions and take corrective actions now Troubleshoot faster and improve end-user experience. Signup Now! http://pubads.g.doubleclick.net/gampad/clk?id=267308311&iu=/4140 _______________________________________________ Jmol-developers mailing list Jmol-developers@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-developers
