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YeeE(TsuA)-YeeD(TsuB) complex for thiosulfate uptake
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6LEO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 7 293 18-24% Pentaerythritol-propoxylate (5/4 PO/OH),
100 mM 2-morpholinoethanesulfonic acid (MES)-NaOH (pH 7.0),
300 mM NaCl
Crystal Properties Matthews coefficient Solvent content 3.57 65.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.98 α = 90 b = 102.44 β = 90 c = 186.52 γ = 90
Symmetry Space Group P 21 2 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 PIXEL DECTRIS EIGER X 9M 2021-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32XU 1.0 SPring-8 BL32XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) Rpim I (All) 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 3.34 49.39 99.07 1.095 0.2815 0.964 4.15 20.4 21071 49.19
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.35 3.47 97.31 4.632 1.012 0.559 0.85 18.5
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 3.34 49.39 1.34 21071 1990 99.09 0.2691 0.2649 0.265 0.3108 0.3108 66.46
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 8.047 f_angle_d 0.5646 f_chiral_restr 0.0393 f_plane_restr 0.005 f_bond_d 0.0029
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6238 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 437
Software Software Software Name Purpose PHENIX refinement Coot model building XDS data scaling PHASER phasing XDS data reduction