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Catalytic core subunits (I and II) of cytochrome C oxidase from Rhodobacter sphaeroides with D132A mutation in the reduced state
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, reduced by dithionite, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.12 70.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 124.67 α = 90 b = 132.033 β = 90 c = 176.286 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 2009-02-02 SINGLE WEAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 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 97.5 0.086 11 7 153760
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 2.23 84 0.575 5.1 13130
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 MOLECULAR REPLACEMENT THROUGHOUT 2.15 42.7 153587 153587 4627 97.19 0.1985 0.1978 0.1996 0.2189 0.2218 RANDOM 43.9531
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] -1.84 -0.31 2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.04 r_dihedral_angle_4_deg 18.054 r_dihedral_angle_3_deg 13.643 r_dihedral_angle_1_deg 5.594 r_scangle_it 1.756 r_scbond_it 1.237 r_angle_refined_deg 1.164 r_mcangle_it 0.953 r_mcbond_it 0.574 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.04 r_dihedral_angle_4_deg 18.054 r_dihedral_angle_3_deg 13.643 r_dihedral_angle_1_deg 5.594 r_scangle_it 1.756 r_scbond_it 1.237 r_angle_refined_deg 1.164 r_mcangle_it 0.953 r_mcbond_it 0.574 r_nbtor_refined 0.311 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.172 r_xyhbond_nbd_refined 0.123 r_metal_ion_refined 0.102 r_chiral_restr 0.086 r_symmetry_hbond_refined 0.025 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12339 Nucleic Acid Atoms Solvent Atoms 460 Heterogen Atoms 645
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