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Crystal structure of the E. coli succinate:quinone oxidoreductase (SQR) SdhD His71Met mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WDQ PDB ENTRY 2WDQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.1M TRIS PH 8.5, 0.1M MGSO4, 11.5% PEG4000, 1MM CARBOXIN
Crystal Properties Matthews coefficient Solvent content 3.12 60.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.06 α = 90 b = 183.82 β = 90 c = 203.42 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 ADSC CCD 2008-07-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.8 48.97 99.9 0.1 12.2 3.7 110749 6 51.32
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 2.8 2.95 100 0.57 2.9 3.7
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 2WDQ 2.803 46.827 0.01 106952 5417 96.49 0.2153 0.2134 0.2154 0.2515 0.2523
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] -18.621 -11.3313 -3.4983
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.475 f_angle_d 0.565 f_chiral_restr 0.039 f_bond_d 0.005 f_plane_restr 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 24519 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 423
Software Software Software Name Purpose PHENIX refinement XDS data reduction SCALA data scaling REFMAC phasing