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streptavidin mutant S112I K121R with an iridium catalyst for CH activation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BC3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 293 2.0 M ammonium sulfate
0.1 M sodium acetate
(soaking under pH 6.0)
Crystal Properties Matthews coefficient Solvent content 2.29 46.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.428 α = 90 b = 57.428 β = 90 c = 183.123 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 EIGER X 16M 2022-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.99988 SLS X06SA
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 2.1 45.78 99.8 0.18 0.191 0.065 0.998 10.3 15.5 9422
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 2.1 2.16 2.279 2.424 0.824 0.573 16.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 NONE 2.1 41.862 9206 449 97.718 0.216 0.2143 0.2118 0.2507 0.2476 44.64
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] -2.85 -2.85 5.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.517 r_dihedral_angle_3_deg 15.271 r_dihedral_angle_2_deg 9.991 r_lrange_it 8.302 r_lrange_other 8.288 r_dihedral_angle_1_deg 7.19 r_scangle_it 5.765 r_scangle_other 5.633 r_mcangle_it 4.8 r_mcangle_other 4.797
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.517 r_dihedral_angle_3_deg 15.271 r_dihedral_angle_2_deg 9.991 r_lrange_it 8.302 r_lrange_other 8.288 r_dihedral_angle_1_deg 7.19 r_scangle_it 5.765 r_scangle_other 5.633 r_mcangle_it 4.8 r_mcangle_other 4.797 r_scbond_it 4.085 r_scbond_other 3.989 r_mcbond_it 3.34 r_mcbond_other 3.338 r_angle_refined_deg 2.174 r_angle_other_deg 0.921 r_nbd_refined 0.219 r_symmetry_nbd_other 0.209 r_nbtor_refined 0.189 r_symmetry_nbd_refined 0.154 r_nbd_other 0.133 r_xyhbond_nbd_refined 0.112 r_symmetry_nbtor_other 0.104 r_chiral_restr 0.069 r_symmetry_xyhbond_nbd_refined 0.055 r_gen_planes_refined 0.008 r_bond_refined_d 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 928 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement XDS data reduction PHASER phasing Aimless data scaling PDB_EXTRACT data extraction