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Crystal structure of CYP90B1 in complex with 1,6-hexandiol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6A16
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.12 M potassium chloride, 0.08 M sodium chloride, 0.05 M sodium cacodylate (pH6.5), 2%(w/v) 1,6-hexandiol
Crystal Properties Matthews coefficient Solvent content 3.8 67.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.715 α = 90 b = 146.715 β = 90 c = 64.605 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 PIXEL DECTRIS EIGER X 9M 2016-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32XU 1.0 SPring-8 BL32XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.48 48.024 99.78 0.09978 0.1162 0.994 10.45 3.8 28328 53.58
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.48 2.569 99.93 1.037 1.206 0.492 1.49 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6A16 2.48 48.024 1.36 28275 1403 99.8 0.1843 0.1826 0.1865 0.2162 0.22
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.431 f_angle_d 0.77 f_chiral_restr 0.042 f_bond_d 0.005 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3565 Nucleic Acid Atoms Solvent Atoms 72 Heterogen Atoms 64
Software Software Software Name Purpose XDS data reduction XDS data scaling Aimless data scaling PHASER phasing Coot model building PHENIX refinement