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ATP synthase from Paracoccus denitrificans
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 298 50 mM Tris-HCl pH 8.0, 70-100 mM MgCl2, 18-20% polyethylene glycol 4000
Crystal Properties Matthews coefficient Solvent content 3.28 62.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.001 α = 90 b = 187.943 β = 97.44 c = 164.724 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS 6M 2015-03-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.917 Diamond I04-1
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 3.97 36.84 98.3 0.253 7.7 9.5 57347
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 3.97 4.08 87.9 1.604 1.9 8.3
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 3.98 36.84 54496 2791 98.63 0.29686 0.29546 0.2918 0.32414 0.3145 RANDOM 144.21
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] -4.49 -6.62 1.48 4.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.273 r_dihedral_angle_3_deg 16.225 r_dihedral_angle_4_deg 14.222 r_long_range_B_refined 13.263 r_long_range_B_other 13.263 r_mcangle_it 5.476 r_mcangle_other 5.476 r_dihedral_angle_1_deg 4.898 r_scangle_other 3.848 r_mcbond_it 3.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.273 r_dihedral_angle_3_deg 16.225 r_dihedral_angle_4_deg 14.222 r_long_range_B_refined 13.263 r_long_range_B_other 13.263 r_mcangle_it 5.476 r_mcangle_other 5.476 r_dihedral_angle_1_deg 4.898 r_scangle_other 3.848 r_mcbond_it 3.088 r_mcbond_other 3.088 r_scbond_it 1.956 r_scbond_other 1.956 r_angle_refined_deg 1.166 r_angle_other_deg 0.962 r_chiral_restr 0.067 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.003 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 31374 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 156
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PHASER phasing