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Catalytic core subunits (I and II) of cytochrome C oxidase from Rhodobacter sphaeroides with D132A mutation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.3 277 26-29% PEG 400, pH 6.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K, vapor diffusion, sitting drop
Crystal Properties Matthews coefficient Solvent content 4.1 69.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.064 α = 90 b = 131.519 β = 90 c = 175.674 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 MARMOSAIC 300 mm CCD 2009-11-15 SINGLE WEAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97872 APS 21-ID-G
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 2.15 50 97.3 0.092 12 6.9 151816
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 2.15 2.24 81.6 0.556 5
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT 2.15 35.84 151679 4574 96.5 0.193 0.192 0.1947 0.215 0.2172 38.49
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] -1.61 -0.37 1.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.208 r_dihedral_angle_4_deg 18.227 r_dihedral_angle_3_deg 13.436 r_dihedral_angle_1_deg 5.54 r_scangle_it 2.112 r_scbond_it 1.484 r_angle_refined_deg 1.164 r_mcangle_it 1.072 r_mcbond_it 0.657 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.208 r_dihedral_angle_4_deg 18.227 r_dihedral_angle_3_deg 13.436 r_dihedral_angle_1_deg 5.54 r_scangle_it 2.112 r_scbond_it 1.484 r_angle_refined_deg 1.164 r_mcangle_it 1.072 r_mcbond_it 0.657 r_nbtor_refined 0.313 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.182 r_xyhbond_nbd_refined 0.139 r_metal_ion_refined 0.121 r_chiral_restr 0.084 r_symmetry_hbond_refined 0.073 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12279 Nucleic Acid Atoms Solvent Atoms 491 Heterogen Atoms 646
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MD2 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing