Table 2.
Data collection and refinement statistics for NP–RNA complexes. Values in brackets are for the highest-resolution shell. RMSD: root-mean-square-deviation from ideal values. Ramachandran analysis was done by MolProbity (25)
| NP-DL-RNA | DLDC2-RNA | |
|---|---|---|
| Crystallization condition | 0.1 M MES, pH 6.0, 0.1 M NaCl and 11% PEG2000 | 0.1 M HEPES, pH 7.5 and 5% propan-2-ol |
| Ligand | 9-mer poly-uridine RNA | 8-mer poly-uridine RNA |
| Beamline | SSRF BL17U1 | SSRF BL17U1 |
| Data collection | ||
| Space Group | P1 | P1 |
| Cell dimensions a, b, c (Å) α, β, γ (degrees) | 54.0, 60.6, 82.7 106.7, 109.0, 96.6 | 53.8, 60.1, 81.4 107.3, 106.7, 96.1 |
| Resolution (Å) | 25.52–2.30 (2.42–2.30) | 38.58–3.00 (3.18–3.00) |
| Rmerge | 10.2% (25.3%) | 16.8% (17.1%) |
| I/σI | 7.1 (2.5) | 5.8 (3.6) |
| Completeness | 90.4 (91.6) | 86.1 (88.2) |
| Multiplicity | 1.9 (1.9) | 1.9 (2.0) |
| Total observations | 69 016 (10198) | 30 372 (5137) |
| Total unique | 37106 (5475) | 15710 (2610) |
| Refinement | ||
| No. of atoms | 6727 (overall), 6498 (macromolecules), 74 (ligands), 155 (waters) | 6421 (overall), 6309 (macromolecules), 63 (ligands), 49 (waters) |
| Resolution (Å) | 24.50–2.30 | 36.62–3.00 |
| R work/Rfree | 0.193/0.248 | 0.289/0.332 |
| RMSD bond length (Å) | 0.0102 | 0.007 |
| RMSD angle (°) | 1.710 | 1.312 |
| MolProbity score | 2.23 | 2.17 |
| Ramachandran | Favored 96.6%, allowed 2.1%, outlier 1.25% | Favored 96.7%, allowed 3.2%, outlier 0.13% |