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HisF-C9A-D11E-V33A_L50H_I52H mutant in complex with Ni(II) from T. maritima
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7QC3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 292 100 mM TRIS, 23% PEG 3350
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.04 α = 90 b = 97.04 β = 90 c = 154.85 γ = 120
Symmetry Space Group P 61 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 2021-08-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.8 30 99.9 0.063 19.4 10.8 40563
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 0.639 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 7QC3 1.8 30 38526 2028 99.91 0.1546 0.1527 0.1667 0.1893 0.2074 RANDOM 39.202
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] -0.14 -0.07 -0.14 0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.109 r_dihedral_angle_4_deg 18.839 r_dihedral_angle_3_deg 13.037 r_dihedral_angle_1_deg 5.876 r_rigid_bond_restr 1.592 r_angle_refined_deg 1.268 r_angle_other_deg 1.264 r_chiral_restr 0.06 r_bond_refined_d 0.004 r_gen_planes_refined 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.109 r_dihedral_angle_4_deg 18.839 r_dihedral_angle_3_deg 13.037 r_dihedral_angle_1_deg 5.876 r_rigid_bond_restr 1.592 r_angle_refined_deg 1.268 r_angle_other_deg 1.264 r_chiral_restr 0.06 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1870 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling REFMAC phasing