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Structure of Recombinant Cytochrome ba3 Oxidase mutant Y133W from Thermus thermophilus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 6.5 293 50mM Sodium Cacodylate, 1.6M NaCl, 40% PEG400, pH 6.5, Lipidic Cubic Phase, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.07 59.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.09 α = 90 b = 97.96 β = 127.99 c = 94.65 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 ADSC QUANTUM 315r M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 1.0 SSRL BL7-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 74.6 97.39 29388 28621
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 2.7 74.6 26466 26466 1401 97.37 0.17621 0.17328 0.1763 0.22993 0.2321 RANDOM 28.285
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] 1.05 1.94 -0.45 1.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.377 r_dihedral_angle_4_deg 17.723 r_dihedral_angle_3_deg 17.562 r_dihedral_angle_1_deg 5.548 r_scangle_it 3.061 r_scbond_it 1.901 r_angle_refined_deg 1.563 r_mcangle_it 1.283 r_mcbond_it 0.684 r_chiral_restr 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.377 r_dihedral_angle_4_deg 17.723 r_dihedral_angle_3_deg 17.562 r_dihedral_angle_1_deg 5.548 r_scangle_it 3.061 r_scbond_it 1.901 r_angle_refined_deg 1.563 r_mcangle_it 1.283 r_mcbond_it 0.684 r_chiral_restr 0.12 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 5882 Nucleic Acid Atoms Solvent Atoms 67 Heterogen Atoms 456
Software Software Software Name Purpose PHASER phasing REFMAC refinement HKL-3000 data reduction SCALA data scaling