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KEAP1 BTB domain in complex with the covalent activator VVD-065
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CXI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9.2 293.15 24% PEG 3350, 100 mM CHES pH 9.2
Crystal Properties Matthews coefficient Solvent content 2.78 55.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.737 α = 90 b = 72.737 β = 90 c = 64.209 γ = 90
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 2021-05-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.000030 ALS 5.0.2
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 1.867 48.183 98.21 0.0625 0.06795 0.02625 0.998 15.21 6.9 27387 42.64
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 1.87 1.937 0.525
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.867 48.183 27387 1336 98.144 0.194 0.1915 0.1993 0.2314 0.2389 44.499
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] -0.466 -0.466 0.933
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.115 r_dihedral_angle_3_deg 15.21 r_lrange_it 9.482 r_lrange_other 9.437 r_scangle_it 7.957 r_scangle_other 7.954 r_dihedral_angle_1_deg 5.918 r_scbond_it 5.497 r_scbond_other 5.495 r_mcangle_it 5.464
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.115 r_dihedral_angle_3_deg 15.21 r_lrange_it 9.482 r_lrange_other 9.437 r_scangle_it 7.957 r_scangle_other 7.954 r_dihedral_angle_1_deg 5.918 r_scbond_it 5.497 r_scbond_other 5.495 r_mcangle_it 5.464 r_mcangle_other 5.461 r_dihedral_angle_2_deg 5.458 r_mcbond_it 4.158 r_mcbond_other 4.158 r_angle_refined_deg 1.589 r_angle_other_deg 0.532 r_nbd_refined 0.218 r_symmetry_nbd_other 0.198 r_nbd_other 0.198 r_nbtor_refined 0.188 r_symmetry_xyhbond_nbd_refined 0.158 r_xyhbond_nbd_refined 0.151 r_symmetry_nbd_refined 0.124 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1974 Nucleic Acid Atoms Solvent Atoms 116 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing