Table 1.
Data collection | PilV (orthorhombic) | PilV (monoclinic) | |
SSRL beamline | SSRL 7-1 | SSRL 7-1 | SSRL 12-2 |
Wavelength (Å) | 0.976 | 0.979 | 0.969 |
Space group | P212121 | P212121 | C2 |
Unit-cell parameters | |||
a, b, c (Å) | 21.8, 39.3, 109.6 | 21.8, 39.3, 109.6 | 46.3, 21.8, 83.8 |
α, β, γ (°) | 90, 90, 90 | 90, 90, 90 | 90, 104, 90 |
Resolution (Å) | 1.96 | 1.96 (2.07 to 1.96) | 1.41 (1.43 to 1.41) |
Solvent content (%) | 42.4 | 42.4 | 33.8 |
Molecules/AU* | 1 | 1 | 1 |
Total no. of reflections† | 53,268 (2,538) | 52,638 (6,230) | 91,105 (4,625) |
Unique reflections | 7,263 (442) | 7,182 (947) | 15,424 (772) |
Multiplicity | 7.3 (5.7) | 7.3 (6.6) | 5.9 (6.0) |
Completeness (%) | 98.7 (89.2) | 98.8 (94.6) | 95.9 (97.0) |
≤I/σ(I)≥ | 23.9 (5.5) | 24.3 (6.9) | 12.2 (4.0) |
Rmerge‡ (%) | 6.6 (28.8) | 5.4 (23.7) | 10.8 (90.0) |
Rpim§ (%) | 2.6 (12.9) | 2.5 (10.8) | 4.3 (0.359) |
CC1/2¶ | 0.999 (0.981) | 0.999 (0.986) | 0.997 (0.843) |
Wilson B factor (Å2) | 17.1 | 8.8 | |
Refinement and model statistics | |||
No. of reflections used | 7,217 | 1,5402 | |
Rwork# | 0.185 | 0.172 | |
Rfreeǁ | 0.255 | 0.206 | |
RMSD | |||
Bond lengths (Å) | 0.007 | 0.009 | |
Bond angles (°) | 0.932 | 1.024 | |
No. of non-H atoms | |||
Protein | 792 | 835 | |
Ligand | 18 | 14 | |
Water oxygens | 73 | 106 | |
Average B factor (Å2) | |||
Protein atoms | 27.1 | 13.3 | |
Ligands | 46.8 | 33.5 | |
Water oxygens | 35 | 22.6 | |
Ramachandran plot | |||
Favored (%) | 100 | 99 | |
Allowed (%) | 100 | 0 | |
Outlier (%) | 0 | 1 | |
PDB code | 5V23 | 5V0M |
*Values in parentheses indicate the highest resolution shell.
†AU, asymmetric unit.
‡Rmerge = ΣhΣi | Ii(h) - <I(h)> | / ΣhΣiIi(h).
§Rpim = Σhkl {1/(Nhkl – 1)} 1/2 Σi | Ii(hkl) - <I(hkl) > | / Σhkl Σi Ii(hkl).
¶CC1/2.
#Rwork = Σhkl | |Fobs| - |Fcalc| | / Σhkl |Fobs|.
ǁRfree is the cross-validation R factor for 5% of the reflections against which the model was not refined.