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Crystal structure of human ERRg LBD in complex with 4034496
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GPO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30%(w/v) PEG 5000 MME, 0.1M Tris 8.0, 0.2M lithium sulfate
Crystal Properties Matthews coefficient Solvent content 2.37 48.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.292 α = 90 b = 64.292 β = 90 c = 137.907 γ = 90
Symmetry Space Group P 41 21 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 PILATUS 6M 2015-01-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.97875 SSRF BL17U1
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 1.5 64.29 99.9 0.06 0.061 0.012 0.999 29.3 24 47222
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 1.5 1.53 99.1 0.889 0.921 0.231 0.861 14.7
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 1.5 47.07 44782 2317 99.81 0.19357 0.19153 0.1999 0.2335 0.2374 RANDOM 25.047
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] -0.43 -0.43 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.646 r_dihedral_angle_4_deg 18.397 r_dihedral_angle_3_deg 14.182 r_long_range_B_refined 6.176 r_long_range_B_other 6.021 r_dihedral_angle_1_deg 5.194 r_scangle_other 5.146 r_scbond_it 3.456 r_scbond_other 3.456 r_mcangle_it 3.048
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.646 r_dihedral_angle_4_deg 18.397 r_dihedral_angle_3_deg 14.182 r_long_range_B_refined 6.176 r_long_range_B_other 6.021 r_dihedral_angle_1_deg 5.194 r_scangle_other 5.146 r_scbond_it 3.456 r_scbond_other 3.456 r_mcangle_it 3.048 r_mcangle_other 3.047 r_mcbond_it 2.193 r_mcbond_other 2.193 r_angle_refined_deg 1.932 r_angle_other_deg 1.56 r_chiral_restr 0.098 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 1853 Nucleic Acid Atoms Solvent Atoms 196 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement Aimless data scaling DIALS data reduction MOLREP phasing