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Crystal structure of Human myo-Inositol Oxygenase (MIOX)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 291 100 mM Tris pH 7.8, 1.8 M Ammonium sulphate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.8 56.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.715 α = 90 b = 55.861 β = 116.72 c = 111.516 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2006-08-26 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9876 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.5 30 67.9 0.059 12.21 4.6 140563 -3 15
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.5 1.6 27 0.369 3.1 4.2 36373
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 THROUGHOUT 1.5 29.34 71962 71962 3633 68.29 0.208 0.208 0.206 0.211 0.248 0.2504 RANDOM 21.966
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] -0.07 -0.09 -0.04 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.93 r_dihedral_angle_4_deg 16.82 r_dihedral_angle_3_deg 13.919 r_dihedral_angle_1_deg 6.374 r_scangle_it 3.578 r_scbond_it 2.579 r_angle_refined_deg 1.522 r_mcangle_it 1.469 r_mcbond_it 1.178 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.93 r_dihedral_angle_4_deg 16.82 r_dihedral_angle_3_deg 13.919 r_dihedral_angle_1_deg 6.374 r_scangle_it 3.578 r_scbond_it 2.579 r_angle_refined_deg 1.522 r_mcangle_it 1.469 r_mcbond_it 1.178 r_nbtor_refined 0.308 r_nbd_refined 0.197 r_symmetry_vdw_refined 0.176 r_xyhbond_nbd_refined 0.175 r_symmetry_hbond_refined 0.152 r_chiral_restr 0.113 r_metal_ion_refined 0.033 r_bond_refined_d 0.014 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3987 Nucleic Acid Atoms Solvent Atoms 544 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ProDC data collection XDS data reduction XSCALE data scaling SHELXD phasing SHARP phasing