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The 1.25A Crystal structure of His6-tagged Mdm2 in complex with nutlin-3a
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 0.2M NaOAc, 1.2M AmSO4, Seeding.
Crystal Properties Matthews coefficient Solvent content 2.41 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.575 α = 90 b = 43.222 β = 90 c = 53.853 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 16M 2018-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.979 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 1.25 33.42 98.8 0.073 0.077 0.023 0.996 20.2 11.7 27731
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 1.25 1.32 93 0.648 0.702 0.261 0.848 6.8
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 1.25 33.42 26267 1403 98.58 0.2191 0.2178 0.2258 0.2431 0.2525 RANDOM 20.887
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] -0.6 -0.01 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.63 r_dihedral_angle_4_deg 24.344 r_dihedral_angle_3_deg 13.284 r_dihedral_angle_1_deg 5.488 r_mcangle_it 2.443 r_angle_refined_deg 1.806 r_mcbond_it 1.727 r_mcbond_other 1.671 r_angle_other_deg 1.513 r_chiral_restr 0.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.63 r_dihedral_angle_4_deg 24.344 r_dihedral_angle_3_deg 13.284 r_dihedral_angle_1_deg 5.488 r_mcangle_it 2.443 r_angle_refined_deg 1.806 r_mcbond_it 1.727 r_mcbond_other 1.671 r_angle_other_deg 1.513 r_chiral_restr 0.121 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_gen_planes_other 0.011 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 721 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 40
Software Software Software Name Purpose HKL-2000 data reduction Aimless data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction