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Crystal structure of mouse myo-inositol oxygenase in complex with substrate
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 (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) 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 0.2052 0.25627 0.2547 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
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 r_nbtor_refined 0.317 r_symmetry_hbond_refined 0.245 r_nbd_refined 0.229 r_xyhbond_nbd_refined 0.201 r_chiral_restr 0.144 r_bond_refined_d 0.02 r_gen_planes_refined 0.008
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