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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 = 192.268 α = 90 b = 57.56 β = 107.42 c = 57.56 γ = 90
Symmetry Space Group C 1 2 1
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 1.9 45.86 97.1 0.145 0.172 0.091 0.99 6.3 3.3 45992
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 1.9 1.94 96.3 0.823 0.998 0.555 0.467 3
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 1.9 41.95 43813 2160 96.65 0.1928 0.1903 0.1989 0.245 0.2504 RANDOM 21.614
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] 1.39 0.41 -1.39 -0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.647 r_dihedral_angle_4_deg 14.731 r_dihedral_angle_3_deg 13.612 r_dihedral_angle_1_deg 8.172 r_angle_other_deg 2.961 r_angle_refined_deg 2.705 r_chiral_restr 0.067 r_bond_other_d 0.038 r_gen_planes_other 0.013 r_bond_refined_d 0.012
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.647 r_dihedral_angle_4_deg 14.731 r_dihedral_angle_3_deg 13.612 r_dihedral_angle_1_deg 8.172 r_angle_other_deg 2.961 r_angle_refined_deg 2.705 r_chiral_restr 0.067 r_bond_other_d 0.038 r_gen_planes_other 0.013 r_bond_refined_d 0.012 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3652 Nucleic Acid Atoms Solvent Atoms 272 Heterogen Atoms 148
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction iMOSFLM data reduction PHASER phasing