2HUO
Crystal structure of mouse myo-inositol oxygenase in complex with substrate
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 6.5 | 291 | Unbuffered 4.4M sodium formate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K |
Crystal Properties | |
---|---|
Matthews coefficient | Solvent content |
2.19 | 43.89 |
Crystal Data
Unit Cell | |
---|---|
Length ( Å ) | Angle ( ˚ ) |
a = 44.602 | α = 90 |
b = 77.202 | β = 90 |
c = 85.397 | γ = 90 |
Symmetry | |
---|---|
Space Group | P 21 21 21 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 210 | CCD | ADSC QUANTUM 210 | cylindrical grazing incidence mirror | 2005-09-25 | M | SINGLE WAVELENGTH | |||||
2 | 1 | x-ray | 210 | CCD | ADSC QUANTUM 210 | cylindrical grazing incidence mirror | 2005-09-25 | M | SINGLE WAVELENGTH | |||||
3 | 1 | x-ray | 210 | CCD | ADSC QUANTUM 210 | cylindrical grazing incidence mirror | 2005-09-25 | M | SINGLE WAVELENGTH | |||||
4 | 1 | x-ray | 210 | CCD | MARMOSAIC 325 mm CCD | Flat collimating mirror, toroid focusing mirror | 2006-02-10 | M | SINGLE WAVELENGTH | |||||
1,2,3,4 | 1 |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | ESRF BEAMLINE ID29 | 1.7389 | ESRF | ID29 |
2 | SYNCHROTRON | ESRF BEAMLINE ID29 | 1.0062 | ESRF | ID29 |
3 | SYNCHROTRON | ESRF BEAMLINE ID29 | 1.0719 | ESRF | ID29 |
4 | SYNCHROTRON | SSRL BEAMLINE BL9-2 | 0.9795 | SSRL | BL9-2 |
Data Collection
Overall | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (Observed) | R Sym I (Observed) | 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 | |||||||
1,2,3,4 | 2 | 44.6 | 100 | 0.087 | 0.087 | 18.9 | 11.8 | 20619 | 28.8 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | R-Sym I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | ||||||||||
1,2,3,4 | 2 | 2.11 | 99.9 | 0.602 | 0.951 | 4 | 12 | 23956 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | |||||
X-RAY DIFFRACTION | SAD from multiple crystals | THROUGHOUT | NONE | 2 | 57.26 | 20619 | 19516 | 1057 | 99.94 | 0.20641 | 0.20377 | 0.25627 | RANDOM | 31.066 |
Temperature Factor Modeling | ||||||
---|---|---|---|---|---|---|
Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
-1.85 | -3.72 | 5.57 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 32.781 |
r_dihedral_angle_4_deg | 20.788 |
r_dihedral_angle_3_deg | 17.959 |
r_dihedral_angle_1_deg | 6.943 |
r_scangle_it | 3.075 |
r_scbond_it | 2.385 |
r_angle_refined_deg | 1.745 |
r_mcangle_it | 1.268 |
r_mcbond_it | 0.878 |
r_symmetry_vdw_refined | 0.322 |
Non-Hydrogen Atoms Used in Refinement | |
---|---|
Non-Hydrogen Atoms | Number |
Protein Atoms | 2116 |
Nucleic Acid Atoms | |
Solvent Atoms | 151 |
Heterogen Atoms | 18 |
Software
Software | |
---|---|
Software Name | Purpose |
REFMAC | refinement |
MOSFLM | data reduction |
CCP4 | data scaling |
SHARP | phasing |