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OgOGA IN COMPLEX WITH LIGAND 24
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7KHS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.25 293 16% (w/v) PEG4K, 0.15 M MgCl2, 0.1M Tris/HCl pH 8.25
Crystal Properties Matthews coefficient Solvent content 2.29 46.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.634 α = 90 b = 93.038 β = 104.03 c = 60.394 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 PILATUS 6M 2018-03-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.0000 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.53 61.56 95.7 0.044 0.055 0.999 15.19 2.8 65376
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.53 1.78 98.1 0.488 0.605 0.885 2.37 2.8
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 (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 1.53 61.56 61188 4032 95.49 0.19146 0.1891 0.2026 0.22737 0.2373 RANDOM
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] -0.7 1.14 0.51 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.072 r_dihedral_angle_4_deg 18.25 r_dihedral_angle_3_deg 13.189 r_long_range_B_refined 6.567 r_long_range_B_other 6.494 r_dihedral_angle_1_deg 6.399 r_scangle_other 4.987 r_scbond_it 3.819 r_scbond_other 3.81 r_mcangle_it 3.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.072 r_dihedral_angle_4_deg 18.25 r_dihedral_angle_3_deg 13.189 r_long_range_B_refined 6.567 r_long_range_B_other 6.494 r_dihedral_angle_1_deg 6.399 r_scangle_other 4.987 r_scbond_it 3.819 r_scbond_other 3.81 r_mcangle_it 3.25 r_mcangle_other 3.25 r_mcbond_other 2.452 r_angle_refined_deg 1.898 r_angle_other_deg 1.401 r_chiral_restr 0.126 r_bond_refined_d 0.019 r_gen_planes_refined 0.011 r_bond_other_d 0.005 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3470 Nucleic Acid Atoms Solvent Atoms 337 Heterogen Atoms 69
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction