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Structure of Mdm2 with low molecular weight inhibitor.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TJ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 0.1 M HEPES pH 7.5 containing 30% PEG 1000
Crystal Properties Matthews coefficient Solvent content 2.21 44.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.61 α = 90 b = 56.55 β = 90 c = 97.31 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 PILATUS 6M 2014-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim 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 1.739 48.893 84.8 0.132 0.151 0.071 6.3 3.9 11908 11908
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 86.8 0.322 0.322 0.186 2.3 3.5 1756
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3TJ2 2 30 11285 600 83.29 0.191 0.1881 0.1973 0.247 0.1969 RANDOM 26.686
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] 2.27 0.63 -2.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.265 r_dihedral_angle_3_deg 19.811 r_dihedral_angle_4_deg 11.821 r_dihedral_angle_1_deg 5.956 r_mcangle_it 1.892 r_angle_refined_deg 1.874 r_angle_other_deg 1.247 r_mcbond_it 1.241 r_mcbond_other 1.222 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.265 r_dihedral_angle_3_deg 19.811 r_dihedral_angle_4_deg 11.821 r_dihedral_angle_1_deg 5.956 r_mcangle_it 1.892 r_angle_refined_deg 1.874 r_angle_other_deg 1.247 r_mcbond_it 1.241 r_mcbond_other 1.222 r_chiral_restr 0.103 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.005 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1562 Nucleic Acid Atoms Solvent Atoms 114 Heterogen Atoms 66
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction