Table 2. Model refinement statistics for local resolution-filtered maps.
| β-galactosidase | TRPV1 channel | RNA polymerase III | γ-secretase | |
|---|---|---|---|---|
| LocRes | LocRes | LocRes | LocRes | |
| Starting model PDB ID | 5a1a | 3j5p | 5fja | 5a63 |
| Resolution (Å) LocRes range (Å) |
2.2
(1.9–3.6) |
3.4
(2.5–4.8) |
4.7
(3.4–8.1) |
3.4
(3.0–6.8) |
| Refinement (Å) | 186.0–1.9 | 311.3–2.5 | 320.9–3.4 | 252.0–3.0 |
| Overall RSCC* | 0.72 | 0.64 (0.78)§ | 0.72 | 0.73 |
| EMRinger score† | 4.15 | 0.46 | 0.89† | 2.69 |
| MOLPROBITY score | 2.00 | 2.43 (1.40)§ | 2.62 | 1.95 |
| Clash score‡ (all atoms) | 4.45 | 6.45 (2.34)§ | 13.31 | 6.18 |
| Rotamer outliers (%) | 3.83 | 4.63 (0.00)§ | 1.95 | 1.00 |
| Ramachandran statistics Favored (%) Disallowed (%) |
96.24 0.00 |
95.1 (94.9) 0.31 (0.64)§ |
86.4 1.00 |
93.01 0.48 |
| RMS bonds (Å) | 0.008 | 0.008 | 0.01 | 0.01 |
| RMS angles (°) | 1.48 | 1.43 | 1.42 | 1.50 |
*Overall real-space correlation computed at the average map resolution using a soft mask around atoms. The EMDB deposition was used as the reference map in all cases.
†EMRinger score calculated only for parts of structure with local resolution estimate better than 4.5 Å.
‡Clash score denotes number of van der Waals overlaps per 100 atoms.
§Scores in brackets are reported for the transmembrane region.