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"non-PDB format compatible" are entries represented only in PDBx/mmCIF format because of one of the following reasons.
  • too large (> 99,999 atoms)
  • too complex (> 62 chains)
  • chain ids with more than 2 characters

As of December 10 2014, the previously split entries for a structure have been consolidated into a single large entry. The primary reason for the split entries was due to the legacy pdb format not being able to handle the number of atoms and number and chains the consolidated entry would hold. However, the wwPDB has been dedicated to migrate the PDB into a more future proof databank using the PDBx/mmCIF format. As such, the split entries have now been consolidated into a single entry and the individual split entries have been obsoleted. New split entries will no longer be released and will only be released as a single consolidated entry.

Since many legacy software still is not able to process PDBx/mmCIF or PDBML files, the wwPDB has prepared a pdb-bundle so that legacy software can still load the new large structures.

The following software is known to be able to process PDBx/mmCIF files:

For more details, please refer PDBx/mmCIF Software Resources.

Note that even though the above software is able to process PDBx/mmCIF files, due to the nature of the large entries, the above software might not be able to properly load the large entries. Furthermore, additional hardware (e.g. > 6GB of RAM) or software (64-bits version of the above programs) might be required.

Created: 2014-12-12 (last edited: 1 month ago)2020-11-02
PDB entries from 2020-12-02