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Neutron structure of D2O-solvent lysozyme
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7FCU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIQUID DIFFUSION 4.5 293 15-25mg/mL HEWL, 50mM sodium acetate (pH4.5), 0.1g/mL NiCl2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.14 α = 90 b = 79.14 β = 90 c = 37.779 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 neutron 298 DIFFRACTOMETER iBIX 2019-06-02 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SPALLATION SOURCE J-PARC MLF BEAMLINE BL-03 2.3-6.8 JPARC MLF BL-03
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 1.8 17.7 97.9 0.189 0.0712 0.9818 6.53 7.3674 11376 -3
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 1.8 1.86 95.4 0.604 0.2843 0.6705 1.06 4.9338
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) Mean Isotropic B NEUTRON DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 7FCU 2 17.7 8392 840 98.52 0.1745 0.1701 0.215
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 16.3 f_angle_d 1.041 f_chiral_restr 0.099 f_plane_restr 0.022 f_bond_d 0.008
Software Software Software Name Purpose PHENIX refinement PHENIX refinement