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Artificial Metalloproteins with Dinuclear Iron Centers
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 4 295 26 mg/mL
2.0 M ammonium sulfate, 0.1 M sodium acetate pH 4
Crystal Properties Matthews coefficient Solvent content 2.29 46.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.56 α = 90 b = 57.56 β = 90 c = 183.45 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 PILATUS3 6M 2019-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.7 45.86 100 0.21 0.22 0.063 0.997 9.1 11.7 17537
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 100 1.84 1.922 0.549 0.38 11.7
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 1.7 41.95 16550 956 99.92 0.1936 0.1919 0.2018 0.2241 0.2338 RANDOM 20.95
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] -0.56 -0.56 1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.941 r_dihedral_angle_4_deg 19.118 r_dihedral_angle_3_deg 13.985 r_dihedral_angle_1_deg 8.152 r_angle_other_deg 2.96 r_angle_refined_deg 2.685 r_chiral_restr 0.072 r_bond_other_d 0.038 r_gen_planes_other 0.018 r_bond_refined_d 0.013
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.941 r_dihedral_angle_4_deg 19.118 r_dihedral_angle_3_deg 13.985 r_dihedral_angle_1_deg 8.152 r_angle_other_deg 2.96 r_angle_refined_deg 2.685 r_chiral_restr 0.072 r_bond_other_d 0.038 r_gen_planes_other 0.018 r_bond_refined_d 0.013 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 928 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms 42
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction iMOSFLM data reduction PHASER phasing