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OleP in complex with testosterone in high salt crystallization conditions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5MNS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 4.4 M sodium formate
Crystal Properties Matthews coefficient Solvent content 3.13 60.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 248.195 α = 90 b = 109.738 β = 129.41 c = 160.13 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 2021-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1.0002 ELETTRA 11.2C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.3 66.07 99.9 0.108 0.999 13.3 6.7 147079
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.34 1.785 0.509
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 2.3 45.75 139800 7266 99.85 0.16762 0.1653 0.1735 0.21226 0.2175 RANDOM 57.647
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] -0.65 0.76 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.275 r_dihedral_angle_2_deg 8.055 r_long_range_B_other 7.615 r_long_range_B_refined 7.612 r_dihedral_angle_1_deg 6.435 r_scangle_other 5.286 r_mcangle_it 3.809 r_mcangle_other 3.809 r_scbond_it 3.475 r_scbond_other 3.352
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.275 r_dihedral_angle_2_deg 8.055 r_long_range_B_other 7.615 r_long_range_B_refined 7.612 r_dihedral_angle_1_deg 6.435 r_scangle_other 5.286 r_mcangle_it 3.809 r_mcangle_other 3.809 r_scbond_it 3.475 r_scbond_other 3.352 r_mcbond_it 2.522 r_mcbond_other 2.522 r_angle_refined_deg 1.692 r_angle_other_deg 0.56 r_chiral_restr 0.077 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_gen_planes_other 0.004 r_bond_other_d 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18919 Nucleic Acid Atoms Solvent Atoms 732 Heterogen Atoms 144
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing