TABLE 1.
Crystallization, data collection, and refinement
MazF-d(AUACAUA) | MazFE24A - MazE(68–82) | MazFE24A - MazE(68–82) | ||
---|---|---|---|---|
Crystallization | ||||
Protein solution | 18 mg/ml (0.7 mm) EcMazF + 4.2 mm oligonucleotide in 50 mm phosphate, pH 7.0, 150 mm NaCl | 10 mg/ml (0.4 mm) EcMazFE24A + 2.5 mm MazE (68–82) in 20 mm Tris-HCl, pH 7.0, 150 mm NaCl | 10 mg/ml (0.4 mm) EcMazFE24A + 2.5 mm MazE (68–82) in 20 mm Tris-HCl, pH 7.0, 150 mm NaCl | |
Reservoir solution | 0.2 m CH3COONa, 0.1 m Tris-HCl, pH 8.5, 30% PEG 4000 | 0.2 m MgCl, 0.1 m (CH3)2AsO2Na, pH 6.5, 50% PEG6000 | 24% PEG1500, 20% glycerol | |
Drop contents | 0.1 + 0.1 μl | 0.1 + 0.1 μl | 0.1 + 0.1 μl | |
Data collection | ||||
Space group | P3121 | C2 | P61 | |
Cell dimensions | 114, 114, 47.5 | 68.8, 32.2, 86.3 | 52.2, 52.2,198 | |
90, 90, 120 | 90, 97.7, 90 | 90, 90, 120 | ||
Resolution range | 47.51–2.90 (3.07–2.90) | 42.74–1.63 (1.73–1.63) | 44.04–2.48 (2.63–2.48) | |
Rsym | 0.224 (0.778) | 0.105 (0.732) | 0.087 (0.883) | |
I/σ (I) | 7.62 (2.10) | 11.10 (2.11) | 10.83 (1.64) | |
Completeness (%) | 92.2 (92.4) | 95.9 (90.9) | 98.7 (98.4) | |
Unique reflections | 7,461 (1130) | 22,847 (3469) | 10,603 (1,681) | |
Total no. of reflections | 40,771 (10,292) | 82,883 (12,312) | 39,042 (6,268) | |
Wavelength (Å) | 0.9801 | 0.9801 | 0.9801 | |
Refinement | ||||
Rwork/Rfree | 0.223/0.290 | 0.178/0.236 | 0.197/0.248 | |
Root mean square deviation | Bond angles (°) | 0.73 | 1.05 | 1.23 |
Root mean square deviation | Bond lengths (Å) | 0.004 | 0.020 | 0.010 |
Content asymmetric unit | 1.5 MazF dimers + 3 DNA fragments | 1 MazF dimer + 1 MazE peptide | 1 MazF dimer + 1 MazE peptide | |
No. of atoms | Protein | 2,558 | 1,500 | 1,592 |
Solvent | 96 | 663 | 33 | |
Other | 152 | |||
Average B-factor (Å2) | All atoms | 38.32 | 25.31 | 68.25 |
Protein | 38.47 | 23.11 | 68.29 | |
Solvent | 25.95 | 45.19 | 61.75 | |
Ramachandran profile (%) | Core region | 97.0 | 98.7 | 98.1 |
Additional allowed | 3.0 | 1.3 | 1.9 | |
disallowed | ||||
PDB code | 5CR2 | 5CQX | 5CQY |