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wwPDB Announcement: Release of Remediated PDB Data

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  • Cathy Lawson
    ***wwPDB Announcement: Release of Remediated PDB Data*** The wwPDB has collaborated on a project to remediate the PDB archive and create a new set of corrected
    Message 1 of 1 , May 3, 2007
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      ***wwPDB Announcement: Release of Remediated PDB Data***


      The wwPDB has collaborated on a project to remediate the PDB archive and create a new set of corrected files.

      The entire archive has been reviewed and remediated with the objectives of improving the detailed chemical description of non-polymer and monomer chemical components; standardizing atom nomenclature; updating sequence database references and taxonomies; resolving any remaining differences between chemical and macromolecular sequences; improving the representation of viruses; and verifying primary citation assignments. In addition, the atom nomenclature for amino acids and nucleotides now conforms with IUPAC standards.

      A new FTP server containing the remediated data has been set up for testing. The access details for this site are provided at http://www.wwpdb.org/remediation-downloads.html. The new ftp site will be updated weekly in concert with the current production site at ftp://ftp.rcsb.org. Both sites share the same directory structure. Starting May 1, the remediated data will be served using gzip compression.

      Your input is very important to us. PDB users are encouraged to test the remediated data files between now and July 2007. The details of the final transition will be announced on the wwPDB website (http://www.wwpdb.org).

      Detailed information about the wwPDB remediation project can be found at http://remediation.wwpdb.org.

      Comments about the files should be sent to info@.... Major announcements will be made at the wwPDB website (http://www.wwpdb.org) as well as on the individual member websites. 






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