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Crystal structure of the F-type ATP synthase c-ring from Acetobacterium woodii.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YCE PDB ENTRY 1YCE
Crystallization Crystal Properties Matthews coefficient Solvent content 2.99 0.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.17 α = 90 b = 121.17 β = 90 c = 150.57 γ = 90
Symmetry Space Group P 43 21 2
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 CCD 2012-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 2.1 20 99.3 0.14 18.08 16.6 65395 1.6 37.21
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 2.1 2.2 98.8 1.03 1.58 16.5
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB ENTRY 1YCE 2.1 47.2 1.99 65363 3270 99.22 0.1837 0.1818 0.1872 0.2198 0.2231
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.422 f_angle_d 0.936 f_chiral_restr 0.059 f_bond_d 0.007 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6474 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 415
Software Software Software Name Purpose PHENIX refinement XDS data reduction XSCALE data scaling PHASER phasing