Statistics in the DAQ-Score Database

• The number of unique versioned chains: 223,169 Current Entry IDs
• The number of unique PDB IDs: 14,700
• The number of unique EMDB IDs: 14,659
• Last update: 2024/10/31

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The DAQ-Score Database will be monthly updated. The current database entries are based on the data in the Protein Data Bank as of 2024/06/26. The DAQ-Score database entries were constructed with the following filtering criteria, starting from all PDB entries (221,716 PDB IDs).

• The method used in the experiment (_exptl.method) includes 'ELECTRON MICROSCOPY' or 'ELECTRON CRYSTALLOGRAPHY'. (21,156 PDB IDs remained)
• Having a resolution value (_em_3d_reconstruction.resolution) which is in 2.5Å <= resolution <= 5.0Å. If having multiple resolution values, the minimum is in the range. (17,536 PDB IDs remained)
• Associated with at least one EMDB ID which is actually existing as a valid record in EMDB. (17,512 PDB IDs remained)

Then all versioned models of those PDB IDs were collected from PDB Versioned Archive. To exclude a not well fitted model to the map, we used the sum of the cross-correlation coefficient and the overlap between the experimental map segmented by the model and the simulated map of the model. If the sum is <1.50, the pair of versioned PDB model and associated EMDB map was excluded from DAQ-Score database. (14,700 PDB IDs remained)

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