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Crystal structure of bovine RPE65 at 1.9 angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FSN PDB ENTRY 3FSN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 281 30% PEG 200 AS PRECIPITANT , pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 281K
Crystal Properties Matthews coefficient Solvent content 3.19 61.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 176.356 α = 90 b = 176.356 β = 90 c = 86.715 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 100 CCD MARMOSAIC 300 mm CCD SI(111) DOUBLE CRYSTAL MONOCHROMETER. ADJUSTABLE FOCUSING MIRRORS IN K-B GEOMETRY 2008-11-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.03324 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.9 100 99 0.104 0.104 17.5 4.7 119836 119836 -3 23.234
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 92 0.565 0.565 2.26 3.2 11075
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) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 3FSN 1.9 20 113526 6139 98.87 0.14758 0.14633 0.17062 0.2008 RANDOM 23.369
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] 3.68 3.68 -7.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.809 r_dihedral_angle_4_deg 13.944 r_dihedral_angle_3_deg 11.831 r_dihedral_angle_1_deg 6.726 r_scangle_it 3.767 r_scbond_it 2.382 r_mcangle_it 1.646 r_angle_refined_deg 1.455 r_mcbond_it 0.943 r_angle_other_deg 0.885
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.809 r_dihedral_angle_4_deg 13.944 r_dihedral_angle_3_deg 11.831 r_dihedral_angle_1_deg 6.726 r_scangle_it 3.767 r_scbond_it 2.382 r_mcangle_it 1.646 r_angle_refined_deg 1.455 r_mcbond_it 0.943 r_angle_other_deg 0.885 r_mcbond_other 0.254 r_chiral_restr 0.093 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8010 Nucleic Acid Atoms Solvent Atoms 503 Heterogen Atoms 2
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling