Table 1.
Structural Statistics for the MDH•6DHNAD, LDH•6DHNAD and PpRen•NADPH complexes
| MDH with 6DHNAD | LDH with 6DHNAD | PpRen with NADPH | |
|---|---|---|---|
| Data collectiona | |||
| Beamline | 9-2 (Stanford) | 9-2 (Stanford) | 21-ID-F (APS) |
| Wavelength (Å) | 0.9795 | 0.9795 | 0.9787 |
| Space group | P212121 | P21 | P21 |
| Cell dimensions; a, b, c (Å), β (°) | 77.5, 83.8, 89.3, 90 | 63.6, 126.1, 84.2, 99.9 | 63.4, 71.0, 74.8, 107.8 |
| Resolution range (Å)b | 39.40 – 1.75 (1.78 – 1.75) | 39.41 – 1.86 (1.89 – 1.86) | 46.02 – 2.09 (2.16 – 2.09) |
| Rmergec | 0.075 (0.548) | 0.066 (0.574) | 0.071 (0.357) |
| Total observations | 286641 (14580) | 373153 (16868) | 119090 (10,650) |
| Total unique observations | 58987 (3036) | 108172 (5057) | 37,538 (3,197) |
| Mean ((I) / σ(I)) | 14.3 (2.6) | 11.8 (2.0) | 11.2 (2.6) |
| Completeness (%) | 99.2 (94.0) | 98.7 (93.2) | 98.0 (96.0) |
| Redundancy | 4.9 (4.8) | 3.4 (3.3) | 3.2 (2.9) |
| Wilson B-factor (Å2) | 14.41 | 19.98 | 24.99 |
| Refinement | |||
| Resolution (Å) | 38.76 – 1.75 (1.81 – 1.75) | 39.41 – 1.86 (1.93 – 1.86)1.996) | 46.02 – 2.09 (2.16 – 2.09) |
| Rcrystd | 0.1545 (0.1915) | 0.1698 (0.2762) | 0.157 (0.196) |
| Rfree | 0.1809 (0.2173) | 0.2104 (0.3050) | 0.203 (0.287) |
| Total unique observations | 58918 (5659) | 107967 (10506) | 37198 (3037) |
| No. of non-H atoms in model: | |||
| Protein | 4381 | 10053 | 4958 |
| Ligand | 88 | 245 | 172 |
| Water | 473 | 506 | 198 |
| rms deviation bonds (Å) | 0.010 | 0.012 | 0.012 |
| rms deviation angles (°) | 1.103 | 1.17 | 1.46 |
| Overall mean B-factor (Å2) | 17.34 | 26.32 | 35.39 |
| Ramachandran plot analysise | |||
| Favored region | 99.0 | 97.4 | 98.0 |
| Allowed region | 1.0 | 2.6 | 2.0 |
| Outlier region | 0.0 | 0.0 | 0.0 |
data indexed and scaled with XDS
values in paretheses are for the highest resolution shell
Rmerge = Σh|Ih – <I>|/ΣhIh, where Ih is the intensity of reflection h, and <I> is the mean intensity of all symmetry-related reflections
Rcryst = Σ||Fo| – |Fc||/Σ|Fo|, Fo and Fc are observed and calculated structure factor amplitudes. Five percent of the reflections were reserved for the calculation of Rfree.
Calculated with Molprobity