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Catalytic Core (Subunits I and II) of Cytochrome c oxidase from Rhodobacter sphaeroides
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.3 277 PEG-400, pH 6.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.93 68.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.02 α = 90 b = 131.639 β = 90 c = 176.802 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 MARRESEARCH 2005-10-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 5ID-B 1 APS 5ID-B
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 20 96.12 0.06 14.8 4.5 192300 184839
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 2.051 97.4 0.399 3.8 4.4 13648
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 (All) 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 MOLECULAR REPLACEMENT THROUGHOUT 2 20 192300 184839 3780 96.12 0.21393 0.21393 0.21355 0.2153 0.23242 0.2338 RANDOM 36.504
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] -2.4 0.18 2.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.691 r_scangle_it 2.332 r_scbond_it 1.503 r_angle_refined_deg 1.253 r_mcangle_it 0.941 r_mcbond_it 0.499 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.208 r_metal_ion_refined 0.158 r_xyhbond_nbd_refined 0.137
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.691 r_scangle_it 2.332 r_scbond_it 1.503 r_angle_refined_deg 1.253 r_mcangle_it 0.941 r_mcbond_it 0.499 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.208 r_metal_ion_refined 0.158 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.095 r_symmetry_hbond_refined 0.063 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12463 Nucleic Acid Atoms Solvent Atoms 503 Heterogen Atoms 678
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling PHASER phasing