TABLE 2.
Data collection and refinement statistics
Values in parenthesis are for the highest resolution shell.
| Se-Met YafQ-DinJ | YafQ-DinJ native | Se-Met YafQ (H87Q) | WT YafQ | YafQ (H87Q) | |
|---|---|---|---|---|---|
| Data collection | |||||
| Wavelength (Å) | 0.9791 | 1.0 | 0.9792 | 1.0 | 1.0 |
| Space group | C2 | C2 | I23 | C2221 | P1 |
| Unit-cell parameters | a = 175.31 Å, b = 119.79 Å, c = 119.72 Å, β = 130.11° | a = 175.90 Å, b = 120.25 Å, c = 120.20 Å, β = 130.40° | a = b = c = 125.45 Å | a = 41.30Å, b = 89.83Å, c = 75.02Å | a = 41.84Å, b = 42.49Å, c = 43.28Å, α = 109.93°, β = 106.12°, γ = 102.07° |
| Resolution (Å) | 2.50 (2.54-2.50)a | 2.10 (2.14-2.10) | 3.00 (3.05-3.00) | 1.50 (1.53-1.50) | 1.50 (1.53-1.50) |
| Unique reflections | 64,984 (3233) | 111,791 (5575) | 6735 (339) | 22,814 (1104) | 39,481 (1853) |
| Completeness (%) | 99.9 (100) | 99.9 (100) | 100 (100) | 100 (100) | 96.3 (92.9) |
| Redundancy | 7.5 (7.5) | 4.9 (5.0) | 29.9 (30.3) | 10.0 (6.9) | 3.9 (2.4) |
| Mean I/σ(I) | 45.41 (10.52) | 32.98 (9.32) | 27.21 (11.04) | 72.47 (16.23) | 45.35 (8.25) |
| Molecules in asymmetric unit | 16 | 16 | 2 | 1 | 2 |
| Rmerge (%) | 13.2 (44.4) | 10.2 (45.8) | 20.7 (47.6) | 6.2 (16.7) | 4.8 (12.2) |
| Structure refinement | |||||
| Resolution range (Å) | 43.71–2.10 | 28.79–1.50 | 26.26–1.50 | ||
| Rwork/Rfree (%) | 17.68/21.51 | 17.64/18.92 | 16.48/18.87 | ||
| Average B factor (Å2) | |||||
| Main chain | 23.10 | 11.95 | 12.38 | ||
| Side chain | 27.59 | 16.10 | 15.89 | ||
| Ligand (SO42−) | 36.07 | 25.71 | 30.29 | ||
| Waters | 31.80 | 31.58 | 28.57 | ||
| No. of atoms | |||||
| Residues | 1387 | 90 | 181 | ||
| Protein | 11,148 | 769 | 1532 | ||
| Ligand (SO42−) | 42 | 5 | 5 | ||
| Waters | 1223 | 217 | 430 | ||
| Ramachandran plot (%) | |||||
| Most favored | 99.56 | 98.89 | 98.88 | ||
| Allowed | 0.44 | 1.11 | 1.12 | ||
| Root mean square deviations | |||||
| Bond lengths (Å) | 0.008 | 0.006 | 0.005 | ||
| Bond angles (degrees) | 1.063 | 1.084 | 1.112 | ||
a Values in parentheses are for the highest resolution shell.