☰ Navigation Tabs
Menin mutant G331R in complex with MLL peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GQ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 285 0.2 M lithium sulfate, 0.1 M HEPES, pH 7.5, 25% (w/v) PEG-3,350
Crystal Properties Matthews coefficient Solvent content 2.16 43.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.695 α = 90 b = 80.012 β = 90 c = 124.358 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 9M 2023-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.9801 SOLEIL PROXIMA 2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.54 67.29 100 0.056 16.3 6.8 72717
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.54 1.62 100 0.569 2.5
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-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.54 67.29 72636 3711 100 0.172 0.202 0.2085 23.01
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] 0.836 -0.339 -0.497
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.048 r_dihedral_angle_2_deg 11.054 r_dihedral_angle_1_deg 6.011 r_scangle_it 5.338 r_scangle_other 5.337 r_scbond_it 3.485 r_scbond_other 3.484 r_mcangle_it 3.205 r_mcangle_other 3.205 r_mcbond_it 2.287
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.048 r_dihedral_angle_2_deg 11.054 r_dihedral_angle_1_deg 6.011 r_scangle_it 5.338 r_scangle_other 5.337 r_scbond_it 3.485 r_scbond_other 3.484 r_mcangle_it 3.205 r_mcangle_other 3.205 r_mcbond_it 2.287 r_mcbond_other 2.287 r_angle_refined_deg 1.905 r_angle_other_deg 0.641 r_nbd_refined 0.236 r_nbtor_refined 0.188 r_nbd_other 0.147 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.093 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbtor_other 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_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3769 Nucleic Acid Atoms Solvent Atoms 396 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement MOLREP phasing XDS data reduction Aimless data scaling