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Structure of RPE65: P6522 crystal form, iridium derivative
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 281 11% PEG3350, pH 8, crystal soaked in 1 mM iridium hexachloride, VAPOR DIFFUSION, SITTING DROP, temperature 281K
Crystal Properties Matthews coefficient Solvent content 3.26 62.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 178.639 α = 90 b = 178.639 β = 90 c = 86.469 γ = 120
Symmetry Space Group P 65 2 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 ADSC QUANTUM 315 2008-11-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0952 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.6 50 98.7 0.105 19 10.6 25187 25186 -3 -3 55.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.75 91.8 0.898 2.15 7.6 7080
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 (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 2.6 48.44 23925 23925 1261 98.73 0.18734 0.18515 0.178 0.22868 0.2207 RANDOM 49.436
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] 0.12 0.06 0.12 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.236 r_sphericity_free 25.189 r_dihedral_angle_4_deg 15.883 r_dihedral_angle_3_deg 13.961 r_sphericity_bonded 11.236 r_dihedral_angle_1_deg 6.977 r_angle_refined_deg 1.354 r_angle_other_deg 0.732 r_chiral_restr 0.075 r_bond_refined_d 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.236 r_sphericity_free 25.189 r_dihedral_angle_4_deg 15.883 r_dihedral_angle_3_deg 13.961 r_sphericity_bonded 11.236 r_dihedral_angle_1_deg 6.977 r_angle_refined_deg 1.354 r_angle_other_deg 0.732 r_chiral_restr 0.075 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4159 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 2
Software Software Software Name Purpose XDS data scaling SHELXCD phasing SHELXE model building PHASER phasing ARP/wARP model building REFMAC refinement XDS data reduction