Table 1.
Global Accuracy Metric Percentile Scores of VGIC VSD X-Ray Structures as Provided by the PDB
| PDB Code | Resolution (Å) | R-Free | Clash Score | Ramachandran Outliers | Side-Chain Outliers | RSRZ Outliers |
|---|---|---|---|---|---|---|
| 3LUT | 2.9 | 0.222 | 23 | 2.50% | 6.80% | 20.30% |
| 3RVY | 2.7 | 0.289 | 32 | 0.20% | 4.20% | 5% |
| 4DXW | 3.05 | 0.261 | 35 | 5.40% | 16.10% | 1.60% |
| 4MS2 | 2.75 | 0.25 | 16 | 0.50% | 8.20% | 2.90% |
| 5VB2 | 3.2 | 0.27 | 6 | 0.00% | 3.10% | 2.10% |
This table contains the global percentile scores of the data and model accuracy of VGIC crystal structures containing the VSD, as listed in the summary report of the database. The data quality validation metrics include free R-factor (R-Free) and Clash Score and Ramachandran, side-chain, and real-space R-value Z-score (RSRZ) outliers as reported for each selected example structure in the Structure Summary section of the database. See also Figures 1 and 2.