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Crystal structure of Au(200EQ)-apo-R168C/L169C-rHLFr
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DAT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293.15 Ammonium Sulfate, Cadmium Sulfate
Crystal Properties Matthews coefficient Solvent content 3.11 60.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 180.786 α = 90 b = 180.786 β = 90 c = 180.786 γ = 90
Symmetry Space Group F 4 3 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 RIGAKU HyPix-6000HE 2021-08-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-X 1.540562
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.5 12.95 99.7 0.999 24.2 9.8 40835
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.53 0.943
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1dat 1.5 12.95 40832 2069 99.612 0.152 0.1513 0.1495 0.1668 0.1628 13.431
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.321 r_dihedral_angle_4_deg 19.341 r_dihedral_angle_3_deg 13.341 r_lrange_it 5.841 r_dihedral_angle_1_deg 5.161 r_scangle_it 4.116 r_scbond_it 2.894 r_mcangle_it 1.976 r_angle_refined_deg 1.962 r_mcbond_it 1.246
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.321 r_dihedral_angle_4_deg 19.341 r_dihedral_angle_3_deg 13.341 r_lrange_it 5.841 r_dihedral_angle_1_deg 5.161 r_scangle_it 4.116 r_scbond_it 2.894 r_mcangle_it 1.976 r_angle_refined_deg 1.962 r_mcbond_it 1.246 r_nbtor_refined 0.316 r_symmetry_nbd_refined 0.287 r_nbd_refined 0.23 r_xyhbond_nbd_refined 0.175 r_symmetry_xyhbond_nbd_refined 0.159 r_chiral_restr 0.106 r_metal_ion_refined 0.081 r_bond_refined_d 0.012 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1372 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction Aimless data scaling MOLREP phasing Coot model building