From the document: "3.5 Resolution macromolecular sequence conflicts Differences in entity sequence assignment between RCSB PDB and MSD-EBI have been resolved. Any remaining differences between the chemical sequence and the macromolecular sequence have also been resolved."
I think that this refers only to the DBREF and SEQRES records in the file. Of course an alanine cannot become a valine or a tyrosine when going from the original to the remediated PDB. I'm not sure what kind of errors have been fixed but I think there could have been inconsistencies between the sequence reported in the SEQRES records and the sequence corresponding to the ATOM records in the PDb file itself. Roberto ............................................ Dr. Roberto Mosca EMBL c/o DESY Notkestr. 85 22607 Hamburg Germany Email: [EMAIL PROTECTED] Tel: +49 (0)40 89902 131 Web: http://www.embl-hamburg.de/~rmosca ............................................ On Jun 8, 2008, at 04:03, Xue Li wrote: > Hello all, > >> From remediated pdb web site http://remediation.wwpdb.org/ >> index.html, I read > "Updated references to databases and taxonomies and Resolved > differences > between chemical and macromolecular sequences". > > Does it mean that for some proteins they will have difference > sequences in > remediated pdb and ordinary pdb? > > Thanks. > > -- > Xue, Li > Bioinformatics and Computational Biology program @ ISU > Ames, IA 50010 > 515-450-7183 > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb > _______________________________________________ BBB mailing list [email protected] http://www.bioinformatics.org/mailman/listinfo/bbb
