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Crystal structure of a selenate-soaked multiheme cytochrome c selenoprotein mutant (MccSep U325A)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other D_1300063677
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.1M ammonium sulfate, 0.1M HEPES (pH 7.5), 10% PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.02 59.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.39 α = 90 b = 123.62 β = 91.6 c = 116.64 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 EIGER R 4M 2020-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B1 0.97919 SPring-8 BL26B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.2 44.06 99.91 0.07205 0.999 19.89 6.9 239402 40.54
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.279 0.786
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 FREE R-VALUE 2.2 44.06 1.21 235788 11798 99.75 0.1705 0.1682 0.1657 0.214 0.2108 46.09
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 16.9791 f_angle_d 0.9783 f_chiral_restr 0.0514 f_bond_d 0.0088 f_plane_restr 0.0076
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13108 Nucleic Acid Atoms Solvent Atoms 936 Heterogen Atoms 1043
Software Software Software Name Purpose PHENIX refinement XDS data reduction XDS data scaling MOLREP phasing