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MENIN IN COMPLEX WITH JNJ-75276617 (Bleximenib)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6PKC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 100 mM Tris pH 6.75 , 5 M NaCl , 0.2 M MgCl2
Crystal Properties Matthews coefficient Solvent content 3.14 60.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.372 α = 90 b = 70.486 β = 91.68 c = 145.561 γ = 90
Symmetry Space Group P 1 21 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 2020-01-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9796 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) 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 2.95 145.5 89.9 0.16 0.185 6.9 3.8 40857
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.96 3.2 51.2 0.849 0.998 1.4 3.5
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 2.95 145.5 38841 2014 89.9 0.23659 0.23333 0.2342 0.29695 0.2942 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] -1.77 -0.95 2.45 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.126 r_dihedral_angle_3_deg 12.882 r_dihedral_angle_4_deg 12.171 r_long_range_B_refined 7.999 r_long_range_B_other 7.998 r_mcangle_it 5.799 r_mcangle_other 5.798 r_dihedral_angle_1_deg 5.485 r_scangle_other 5.483 r_mcbond_it 3.543
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.126 r_dihedral_angle_3_deg 12.882 r_dihedral_angle_4_deg 12.171 r_long_range_B_refined 7.999 r_long_range_B_other 7.998 r_mcangle_it 5.799 r_mcangle_other 5.798 r_dihedral_angle_1_deg 5.485 r_scangle_other 5.483 r_mcbond_it 3.543 r_mcbond_other 3.543 r_scbond_it 3.352 r_scbond_other 3.35 r_angle_refined_deg 1.097 r_angle_other_deg 0.889 r_chiral_restr 0.053 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15264 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 199
Software Software Software Name Purpose autoPROC data reduction XDS data reduction autoPROC data scaling Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing