8CM0
Rhs2-CT endonuclease toxin in complex with cognate immunity protein RhsI2
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP | 296 | Crystals were grown in a condition containing 0.2 uL of 6.5 mg/mL Rhs2CT-RhsI2 (in 20 mM MES & 20 mM imidazole pH 6.0, 150 mM NaCl, 1 mM MgCl2, 0.5 mM TCEP) and 0.2 uL of reservoir solution (0.2 M ammonium acetate, 0.1 M sodium acetate pH 5.0, 20% PEG4K). |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.13 | 42.41 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 37.006 | α = 90 |
b = 81.931 | β = 90 |
c = 101.371 | γ = 90 |
Symmetry | |
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Space Group | P 21 21 21 |
Diffraction
Diffraction Experiment | ||||||||||||||
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ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 100 | PIXEL | DECTRIS PILATUS3 X 2M | 2022-06-09 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | ESRF BEAMLINE ID23-1 | 0.8731 | ESRF | ID23-1 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (Observed) | Rpim I (All) | CC (Half) | Net I Over Average Sigma (I) | Redundancy | Number Reflections (All) | Number Reflections (Observed) | Observed Criterion Sigma (F) | Observed Criterion Sigma (I) | B (Isotropic) From Wilson Plot | ||||||
1 | 2.17 | 37.98 | 100 | 0.157 | 0.07 | 0.993 | 8.7 | 6 | 17007 |
Highest Resolution Shell | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | Rpim I (All) | CC (Half) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||
1 | 2.17 | 2.24 | 100 | 1.511 | 0.661 | 0.542 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Work | R-Free | Mean Isotropic B | ||||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | FREE R-VALUE | 2.17 | 37.98 | 16949 | 842 | 99.906 | 0.198 | 0.195 | 0.2526 | 34.743 |
Temperature Factor Modeling | ||||||
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Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
0.916 | -1.073 | 0.157 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 34.427 |
r_dihedral_angle_3_deg | 18.868 |
r_dihedral_angle_4_deg | 18.442 |
r_lrange_it | 8.126 |
r_lrange_other | 8.125 |
r_dihedral_angle_1_deg | 6.934 |
r_scangle_it | 6.025 |
r_scangle_other | 6.024 |
r_mcangle_it | 4.349 |
r_mcangle_other | 4.347 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 2185 |
Nucleic Acid Atoms | |
Solvent Atoms | 131 |
Heterogen Atoms | 16 |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
XDS | data reduction |
xia2 | data scaling |
PHASES | phasing |