Current Dictionaries and File Formats
These dictionaries and formats are currently used for
deposition and archiving of 3DEM maps and models.
- EMDB v.1.9 header xml schema for maps
and 3DEM experiment metadata
- EMDataBank map format
- Fourier Shell Correlation (FSC) xml schema
- wwPDB dictionary V4 (mmCIF/PDBx) for model coordinates and 3DEM experiment metadata
Development Dictionaries for the wwPDB Deposition and Annotation System
EMDataBank partners PDBe and RCSB are in the process of developing 3DEM joint map + model deposition capability within new Worldwide Protein Data Bank (wwPDB) deposition and annotation (D&A) system. The D&A system will become available for 3DEM depositions in mid-2014. The aim of the D&A system is to facilitate the process of deposition of biomacromolecular structure data by all major experimental methods, including hybrid methods, and to provide tools for validation. The underlying data model used to describe EM experiments in the new system has been expanded to capture the important aspects of the various EM methodologies and new developments in this rapidly evolving field. The updated data model is implemented in both mmCIF and xml.
- EMDB D&A header xml schema for maps and 3DEM experiment metadata
- wwPDB dictionary V5 (mmCIF/PDBx) for model coordinates, maps, and 3DEM experiment metadata