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1.8 A structure of ba3 cytochrome c oxidase from Thermus thermophilus in lipid environment
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 6 293 40-45% PEG 400, 1.0-1.6M NaCl, 100mM sodium cacodylate trihydrate pH 5.5-6.5, lipidic cubic phase with monolein, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.14 60.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.585 α = 90 b = 97.816 β = 128.3 c = 94.952 γ = 90
Symmetry Space Group C 1 2 1
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 2010-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.0330 APS 23-ID-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 1.8 50 97.3 0.097 11.5 4.7 92466
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 1.8 1.86 90.2 0.68 3.4 8519
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 37.26 92450 4656 97.21 0.1858 0.1842 0.1978 0.2147 0.227 RANDOM 33.0516
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] -0.04 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.353 r_dihedral_angle_4_deg 22.493 r_dihedral_angle_3_deg 15.849 r_dihedral_angle_1_deg 6.102 r_scangle_it 4.196 r_scbond_it 3.015 r_angle_refined_deg 2.169 r_mcangle_it 1.968 r_mcbond_it 1.435 r_chiral_restr 0.209
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.353 r_dihedral_angle_4_deg 22.493 r_dihedral_angle_3_deg 15.849 r_dihedral_angle_1_deg 6.102 r_scangle_it 4.196 r_scbond_it 3.015 r_angle_refined_deg 2.169 r_mcangle_it 1.968 r_mcbond_it 1.435 r_chiral_restr 0.209 r_bond_refined_d 0.029 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5890 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms 456
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MiFit phasing