Table 1 X-ray data collection and refinement statistics for D2HDH structures
NADP+ 2KHA KCl | NAD+ 2KHA NaCl | NADP+ 2KHA NaCl | NADP+ 2KHA 2HHA NaCl | Apo-enzyme NaCl | NAD+ 2KHA SO42- NaCl | |
|---|---|---|---|---|---|---|
PDB code | 9ibe | 8qzb | 5mh5 | 5mha | 8qza | 5mh6 |
Data Collection | ||||||
Space group | P1 | P1 | P21 | P21 | P21 | P1 |
Cell dimensions: | ||||||
a(Å) | 66.63 | 66.18 | 62.53 | 62.54 | 62.35 | 66.46 |
b(Å) | 75.34 | 74.78 | 87.40 | 76.30 | 75.99 | 75.01 |
c(Å) | 78.23 | 78.17 | 66.10 | 66.99 | 74.59 | 77.55 |
α(°) | 108.8 | 109.1 | 90.0 | 90.0 | 90.0 | 109.1 |
β(°) | 108.0 | 107.9 | 96.34 | 97.04 | 93.99 | 107.6 |
γ(°) | 95.5 | 95.6 | 90.0 | 90.0 | 90.0 | 95.9 |
Subunits per asymmetric unit | 4 | 4 | 2 | 2 | 2 | 4 |
Resolution (Å)a | 52.28–1.26 (1.28–1.26) | 46.6–1.16 (1.18–1.16) | 52.51–1.4 (1.42–1.4) | 38.15–1.57 (1.61–1.57) | 29.4–2.25 (2.33–2.25) | 46.54–1.35 (1.37–1.35) |
Total reflectionsa | 1,253,021 (60,722) | 1,542,061 (62,913) | 1,021,332 (50,216) | 174,757 (12,974) | 223,285 (6387) | 577,246 (28,535) |
Unique reflectionsa | 332,819 (16,111) | 427,918 (18,892) | 132,820 (6288) | 81,835 (5989) | 32,656 (2669) | 268,611 (13,112) |
Rpima | 0.059 (0.99) | 0.042 (0.50) | 0.036 (0.38) | 0.039 (0.40) | 0.041 (0.42) | 0.061 (0.46) |
Mean I/σ(I)a | 12.0 (0.8) | 17.1 (1.3) | 15.4 (2.4) | 13.6 (2.2) | 11.9 (1.7) | 23.6 (2.1) |
Completeness (%)a | 92.2 (89.4) | 93.9 (83.7) | 95.5 (91.5) | 94.8 (93.7) | 98.8 (88.0) | 93.0 (91.7) |
Multiplicitya | 3.8 (3.8) | 3.6 (3.3) | 7.7 (8.0) | 2.1 (2.2) | 6.8 (5.1) | 2.1 (2.2) |
CC1/2a | 0.99 (0.33) | 0.94 (0.56) | # | # | 0.99 (0.79) | # |
Refinement | Number of non-H atoms | |||||
Protein | 9546 | 9590 | 4784 | 4726 | 4702 | 9534 |
Ligands/counter ions | 269 | 267 | 145 | 159 | 7 | 342 |
Water | 1575 | 1622 | 676 | 451 | 70 | 1768 |
Rwork/Rfree | 0.15/0.19 | 0.135/0.165 | 0.14/0.17 | 0.17/0.22 | 0.19/0.25 | 0.12/0.16 |
Average B factor (Å2) | ||||||
Main chain/side chain | 15.6/18.8 | 14.2/18.2 | 16.3/23.4 | 25.7/36.9 | 65.1/70.7 | 13.5/21.2 |
Ligands/counter ions | 14.7 | 14.7 | 17.8 | 31.5 | 52.6 | 19.6 |
Water | 28.0 | 30.5 | 27.7 | 32.7 | 44.1 | 33.1 |
Rmsd bond length (Å) / angle (°) | 0.010/1.8 | 0.011/1.7 | 0.01/1.59 | 0.013/1.67 | 0.012/1.94 | 0.012/1.42 |