Table 2. . X-ray data collection and refinement statistics of p53-Y220C ligand structures.
Compound | PK9284 | PK9318 | PK9320 | PK9324 | PK9327 | PK9328 |
---|---|---|---|---|---|---|
Data collection | ||||||
Space group | P212121 | P212121 | P212121 | P212121 | P212121 | P212121 |
a (Å) | 65.11 | 64.83 | 64.89 | 64.89 | 65.08 | 65.11 |
b (Å) | 71.26 | 71.18 | 71.17 | 71.25 | 71.22 | 71.21 |
c (Å) | 105.31 | 104.98 | 105.02 | 105.06 | 105.27 | 105.35 |
Molecules/AU | 2 | 2 | 2 | 2 | 2 | 2 |
Resolution (Å)† | 29.6–1.55 (1.63–1.55) | 29.5–1.32 (1.39–1.32) | 29.5–1.24 (1.31–1.24) | 29.5–1.40 (1.48–1.40) | 29.6–1.25 (1.32–1.25) | 29.6–1.32 (1.39–1.32) |
Unique reflections | 71,228 | 112,690 | 137,227 | 96,032 | 129,162 | 114,821 |
Completeness (%)† | 99.8 (99.0) | 98.6 (97.1) | 99.3 (98.3) | 99.6 (99.9) | 95.5 (93.0) | 99.5 (99.3) |
Multiplicity† | 4.4 (4.3) | 5.5 (5.4) | 4.6 (4.6) | 4.7 (4.8) | 5.3 (5.4) | 5.1 (4.8) |
Rmerge (%)† | 3.6 (46.8) | 6.9 (50.8) | 3.8 (51.3) | 5.0 (52.3) | 5.4 (58.1) | 4.9 (55.0) |
Mean I/σ(I)† | 17.9 (2.9) | 12.7 (3.2) | 17.4 (3.3) | 14.5 (2.9) | 13.8 (2.8) | 16.0 (3.3) |
Wilson B value (Å2) | 20.7 | 10.8 | 10.5 | 14.0 | 10.7 | 11.6 |
Refinement | ||||||
Rwork (%)‡ | 18.0 | 14.2 | 15.0 | 14.9 | 15.1 | 14.9 |
Rfree (%)‡ | 20.0 | 16.1 | 16.6 | 17.0 | 17.1 | 17.1 |
No. of atoms | ||||||
Protein§ | 3072 | 3106 | 3112 | 3107 | 3104 | 3114 |
Zinc | 2 | 2 | 2 | 2 | 2 | 2 |
Water | 374 | 507 | 443 | 364 | 482 | 454 |
Ligands | 38 | 71 | 60 | 52 | 48 | 54 |
RMSD bonds (Å) | 0.006 | 0.004 | 0.005 | 0.005 | 0.005 | 0.005 |
RMSD angles (°) | 0.8 | 0.8 | 0.8 | 0.8 | 0.8 | 0.8 |
Mean B (Å2) | 27.0 | 19.0 | 18.0 | 22.0 | 20.2 | 20.0 |
PDB entry | 6GGA | 6GGB | 6GGC | 6GGD | 6GGE | 6GGF |
Values in parentheses are for the highest resolution shell.
Rwork and Rfree.#x00A0;= ∑||Fobs. - |Fcalc.|/∑|Fobs., where Rfree was calculated with 5% of the reflections chosen at random and not used in the refinement.
Number includes alternative conformations.
PDB: Protein Data Bank; RMSD: Root-mean-square deviation.