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Crystal structure analysis of Photosystem II complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.1 285 Mes,NaCl,CaCl2,MgSO4
Crystal Properties Matthews coefficient Solvent content 3.35 63.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.404 α = 90 b = 228.224 β = 90 c = 286.429 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 100 CCD RAYONIX MX-225 2015-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 0.9 SPring-8 BL38B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.87 49 99.9 0.13 0.998 17.2 11.3 649016
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 THROUGHOUT 1.87 48.98 616103 32518 99.84 0.17329 0.17125 0.1713 0.21176 0.2118 RANDOM 33.64
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 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.314 r_dihedral_angle_4_deg 16.172 r_dihedral_angle_3_deg 13.876 r_dihedral_angle_1_deg 6.016 r_angle_refined_deg 2.383 r_chiral_restr 0.119 r_bond_refined_d 0.017 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.314 r_dihedral_angle_4_deg 16.172 r_dihedral_angle_3_deg 13.876 r_dihedral_angle_1_deg 6.016 r_angle_refined_deg 2.383 r_chiral_restr 0.119 r_bond_refined_d 0.017 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 40948 Nucleic Acid Atoms Solvent Atoms 3625 Heterogen Atoms 10443
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing