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Structure of the M305I mutant of CueO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3OD3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG3350, KNO3
Crystal Properties Matthews coefficient Solvent content 1.96 37.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.798 α = 86.979 b = 49.922 β = 80.626 c = 95.933 γ = 70.535
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 2021-01-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32XU 1.00000 SPring-8 BL32XU
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 1.494 47.371 92.8 0.991 5.63 8.7 132574
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.494 1.58 93.3 1.065
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3od3 1.494 47.371 132574 6644 95.127 0.189 0.1872 0.195 0.2322 0.2422 37.442
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] 1.009 -1.395 0.062 0.558 0.355 -2.574
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.601 r_dihedral_angle_4_deg 18.48 r_dihedral_angle_3_deg 15.415 r_dihedral_angle_1_deg 7.78 r_lrange_it 6.814 r_lrange_other 6.808 r_scangle_it 5.288 r_scangle_other 5.287 r_mcangle_it 4.049 r_mcangle_other 4.049
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.601 r_dihedral_angle_4_deg 18.48 r_dihedral_angle_3_deg 15.415 r_dihedral_angle_1_deg 7.78 r_lrange_it 6.814 r_lrange_other 6.808 r_scangle_it 5.288 r_scangle_other 5.287 r_mcangle_it 4.049 r_mcangle_other 4.049 r_scbond_it 3.747 r_scbond_other 3.746 r_mcbond_it 3.067 r_mcbond_other 3.067 r_angle_refined_deg 1.718 r_angle_other_deg 1.31 r_symmetry_xyhbond_nbd_refined 0.213 r_nbd_refined 0.208 r_nbd_other 0.197 r_symmetry_nbd_other 0.191 r_nbtor_refined 0.157 r_xyhbond_nbd_refined 0.139 r_symmetry_nbd_refined 0.132 r_metal_ion_refined 0.084 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.072 r_symmetry_xyhbond_nbd_other 0.03 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7288 Nucleic Acid Atoms Solvent Atoms 571 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement DIALS data reduction XSCALE data scaling BALBES phasing