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Crystal structure of human copper chaperone Atox1 bound to zinc ion by CxxC motif
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QOT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 Drop:12.5mg/ml Atox1 + 1.62mM ZnSO4 in 25mM Sodium Phosphate buffer pH 7.0, 2mM DTT;
Reservoir: 1.9M Li2SO4, 100mM MES pH 6.0, 2.5% glycerol;
VAPOR DIFFUSION, SITTING DROP, temperature 293K.
Crystal Properties Matthews coefficient Solvent content 3.26 62.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.226 α = 90 b = 78.226 β = 90 c = 54.637 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS EIGER2 S 16M 2021-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.2800 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.9 39.04 94.3 0.998 14.6 2.3 23876 27.48
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 1.9 1.94 92 0.765
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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 THROUGHOUT 4qot 1.9 25.61 1.36 23876 1214 81.65 0.1662 0.165 0.1648 0.1859 0.1863 32.4581
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1012 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 31
Software Software Software Name Purpose MxCuBE data collection XDS data reduction Aimless data scaling Sir2014 phasing PHENIX model building PHENIX refinement PDB_EXTRACT data extraction