TABLE 1.
Statistics | Dataset I: NirE + SAH | Dataset II: NirE + SAH + uro'gen III |
---|---|---|
Data collection | ||
Beamline | Rigaku MircoMax 007HF | BESSY (BL14.2) |
Wavelength (Å) | 1.541 | 0.91841 |
Resolution (Å)a | 46.3-2.0 (2.05-2.00) | 35.0-2.0 (2.05-2.00) |
Space group | C2221 | C2221 |
Unit cell parameters | ||
a, b, c (Å) | 60.9, 115.1, 76.8 | 60.9, 116.2, 77.1 |
α, β, γ (°) | 90, 90, 90 | 90, 90, 90 |
Unique reflectionsa | 19,360 (1,411) | 18,362 (1,418) |
Multiplicitya | 4.4 (4.5) | 3.9 (4.0) |
Completeness (%)a | 99.82 (99.86) | 92.6 (99.9) |
I/σIa | 20.19 (2.58) | 22.8 (4.0) |
Rmergea,b | 0.043 (0.586) | 0.083 (0.451) |
Wilson B (Å2) | 35.1 | 34.4 |
Solvent content (%) | 46.4 | 49.7 |
Refinement | ||
Rworkc | 0.2349 | 0.2169 |
Rfreed | 0.2868 | 0.2526 |
No. of atoms | ||
Protein | 1,864 | 1,825 |
Ligand | 26 | 86 |
Water | 195 | 129 |
Total | 2,085 | 2,040 |
Atomic displacement factors B (Å2)e | ||
Overall | 21.4 | 33.6 |
Protein | 21.4 | 33.7 |
SAH | 23.6 | 22.7 |
Uro'gen III | 58.8 | |
Water | 21.4 | 24.0 |
Molecules per asymmetric unit | 1/1/0 | 1/1/1 |
(NirE/SAH/uro'gen III) | ||
Real space correlation coefficientsf | ||
Total | 0.7676 | 0.7806 |
Protein | ||
Backbone | 0.8204 | 0.8546 |
Side chains | 0.7848 | 0.8232 |
SAH | 0.9314 | 0.9427 |
Uro'gen III | 0.7769 | |
Root mean square deviation from ideal | ||
Bond lengths (Å) | 0.0239 | 0.0219 |
Bond angles (°) | 2.167 | 1.935 |
Ramachandran plot | ||
Favored (%) | 97.1 | 97.0 |
Allowed (%) | 2.9 | 3.0 |
Disallowed (%) | 0.0 | 0.0 |
a Values in parentheses account for the highest resolution shell.
b Rmerge = Σ| Io−〈I〉|/ΣIo.
c Rwork = (Σ‖Fo|−|Fc‖/Σ|Fo|); |Fo|, structure factor magnitudes observed; |Fc|, structure factors calculated.
d Rfree is computed as Rwork but using 5% randomly assigned reflections excluded from refinement.
e These B factors constitute the total B factors representing isotropic (thermal) and anisotropic (domain) movement.
f Real space correlation coefficient (RSCC) = Σ|ρo−〈ρo〉|Σ|ρc − 〈ρc〉|/(Σ| ρo−〈ρo〉|2Σ|ρc−〈ρc〉2|)1/2; ρ, electron density values at grid points that cover the molecule in question; ρo, experimental electron density; ρc, model density.