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Crystal structure of human Opioid Binding Protein/Cell Adhesion Molecule Like (OPCML)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 A 50/50 (v/v) mix of 1.6 M MgSO4, 0.1 M MES pH 6.5 with 20% PEG 8000, 100 mM HEPES pH 7.5.
Crystal Properties Matthews coefficient Solvent content 4.66 73.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.564 α = 90 b = 93.564 β = 90 c = 262.158 γ = 90
Symmetry Space Group P 41 21 2
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 MAR CCD 165 mm 2016-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97931 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim 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 2.65 18.5 95.81 0.17 0.047 0.996 9.71 14.4 34665 62.8618429607
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.744 88.8 2.74 0.74 0.685 1.2 14.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SIRAS FREE R-VALUE 2.65001977608 18.4427015654 1.3269332535 33372 1713 96.2006341885 0.284949700167 0.284083141182 0.2814 0.300280125102 0.298 84.6421742087
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 11.4187860743 f_angle_d 0.881733671118 f_chiral_restr 0.0538547637936 f_bond_d 0.00581078481975 f_plane_restr 0.00472003162303
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4176 Nucleic Acid Atoms Solvent Atoms 40 Heterogen Atoms 134
Software Software Software Name Purpose PHENIX refinement PHENIX refinement iMOSFLM data reduction SCALA data scaling PHENIX phasing