Joint X-ray Neutron Structure of Cholesterol Oxidase
X-RAY DIFFRACTION - NEUTRON DIFFRACTION
Crystallization
Crystalization Experiments |
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ID | Method | pH | Temperature | Details |
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1 | VAPOR DIFFUSION | | 293 | 7% PEG 8000, 100mM MnSO4, 100mM cacodylic acid pH 5.2 |
Crystal Properties |
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Matthews coefficient | Solvent content |
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2.12 | 42.01 |
Crystal Data
Unit Cell |
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Length ( Å ) | Angle ( ˚ ) |
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a = 51.605 | α = 90 |
b = 74.084 | β = 105.21 |
c = 63.828 | γ = 90 |
Symmetry |
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Space Group | P 1 21 1 |
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Diffraction
Diffraction Experiment |
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ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol |
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1 | 1 | neutron | 293 | IMAGE PLATE | MAATEL IMAGINE | | 2013-06-01 | L | LAUE |
2 | 1 | x-ray | 293 | IMAGE PLATE | RIGAKU RAXIS IV++ | Osmic Varimax | 2013-07-01 | M | SINGLE WAVELENGTH |
Radiation Source |
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
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1 | NUCLEAR REACTOR | ORNL High Flux Isotope Reactor BEAMLINE CG4D | 2.8-4.3 | ORNL High Flux Isotope Reactor | CG4D |
2 | ROTATING ANODE | RIGAKU MICROMAX-007 HF | 1.54 | | |
Data Collection
Overall |
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (Observed) | R Sym I (Observed) | Rrim I (All) | Rpim I (All) | CC (Half) | R Split (All) | 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 |
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1 | 2.192 | 61.593 | 76.7 | 0.258 | 0.258 | | | | | 4 | 4 | | 17714 | | | 12.4 |
2 | 1.499 | 40 | 91.03 | | | | | | | 21.1 | 3.6 | | 67641 | | | 12.4 |
Highest Resolution Shell |
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | R Merge I (Observed) | R-Sym I (Observed) | Rrim I (All) | Rpim I (All) | CC (Half) | R Split (All) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) |
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1 | 2.2 | 2.32 | | 0.349 | | | | | | 1.9 | 3.3 | |
1 | 2.32 | 2.46 | | 0.335 | | | | | | 2.1 | 3.2 | |
1 | 2.46 | 2.63 | | 0.329 | | | | | | 2.1 | 3.3 | |
1 | 2.63 | 2.84 | | 0.308 | | | | | | 2.2 | 3.4 | |
1 | 2.84 | 3.11 | | 0.28 | | | | | | 2.4 | 3.7 | |
1 | 3.11 | 3.48 | | 0.258 | | | | | | 2.6 | 4.2 | |
1 | 3.48 | 4.02 | | 0.257 | | | | | | 2.5 | 4.9 | |
1 | 4.02 | 4.92 | | 0.243 | | | | | | 2.6 | 5.4 | |
1 | 4.92 | 6.96 | | 0.195 | | | | | | 3.2 | 5.1 | |
1 | 6.96 | 61.199 | | 0.13 | | | | | | 4.5 | 3.6 | |
Refinement
Statistics |
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Diffraction ID | Structure Solution Method | Resolution (High) | Resolution (Low) | Cut-off Sigma (I) | Cut-off Sigma (F) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B |
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X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | 1.499 | 25.264 | | 1.37 | | 67641 | 3376 | 91.03 | | 0.1918 | 0.1904 | 0.2195 | | 13.2196 |
NEUTRON DIFFRACTION | MOLECULAR REPLACEMENT | 2.214 | 61.593 | | | | 17713 | 886 | 76.21 | | 0.2849 | 0.2835 | 0.3117 | | |
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] |
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| | | | | |
| | | | | |
RMS Deviations |
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Key | Refinement Restraint Deviation |
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f_dihedral_angle_d | 23.11 |
f_angle_d | 1.459 |
f_chiral_restr | 0.134 |
f_plane_restr | 0.036 |
f_bond_d | 0.016 |
Non-Hydrogen Atoms Used in Refinement |
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Non-Hydrogen Atoms | Number |
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Protein Atoms | 3834 |
Nucleic Acid Atoms | |
Solvent Atoms | 435 |
Heterogen Atoms | 88 |
Software
Software |
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Software Name | Purpose |
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PHENIX | refinement |
PDB_EXTRACT | data extraction |
HKL-3000 | data reduction |
SCALA | data scaling |
PHASER | phasing |