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Artificial Metalloproteins Containing a Co4O4 Active Site - 2xm-S112Y-b
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QCB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 2.6 M ammonium sulfate, 0.1 M sodium acetate, pH 4.0
Crystal Properties Matthews coefficient Solvent content 2.34 47.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.945 α = 90 b = 57.945 β = 90 c = 184.565 γ = 90
Symmetry Space Group I 41 2 2
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 PILATUS 6M 2017-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1 SSRL BL9-2
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 1.36 37.45 99.8 0.063 0.999 14.2 10.2 34035
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2QCB 1.36 37.45 32305 1688 99.77 0.20383 0.20258 0.2059 0.22896 0.2303 RANDOM 20.803
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] -0.16 -0.16 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.134 r_dihedral_angle_4_deg 14.119 r_dihedral_angle_3_deg 10.943 r_dihedral_angle_1_deg 7.272 r_long_range_B_refined 6.792 r_angle_refined_deg 6.315 r_long_range_B_other 6.003 r_scangle_other 4.043 r_scbond_it 3.791 r_mcangle_it 2.967
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.134 r_dihedral_angle_4_deg 14.119 r_dihedral_angle_3_deg 10.943 r_dihedral_angle_1_deg 7.272 r_long_range_B_refined 6.792 r_angle_refined_deg 6.315 r_long_range_B_other 6.003 r_scangle_other 4.043 r_scbond_it 3.791 r_mcangle_it 2.967 r_mcangle_other 2.967 r_scbond_other 2.792 r_angle_other_deg 2.465 r_mcbond_it 2.111 r_mcbond_other 2.098 r_chiral_restr 0.253 r_bond_refined_d 0.051 r_gen_planes_refined 0.016 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 906 Nucleic Acid Atoms Solvent Atoms 74 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing