☰ Navigation Tabs
CRYSTAL STRUCTURE OF HUMAN MDMX IN COMPLEX WITH 12-MER PEPTIDE INHIBITOR M3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4RXZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 14% (v/v) 2-Propanol ,70 mM Sodium acetate/ Hydrochloric acid pH 4.6, 140 mM Calcium chloride, 30% (v/v) Glycerol
Crystal Properties Matthews coefficient Solvent content 2.08 40.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.413 α = 90 b = 88.027 β = 90.66 c = 46.3 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 PSI PILATUS 6M 2016-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.9795 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3 50 49.8 0.153 2.1 1.4 3592 26
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.16 52.4 0.364 1.8 1.4
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 4RXZ 3 50 3412 180 48.77 0.26079 0.25791 0.2647 0.31526 0.3148 RANDOM 45.78
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 -0.46 0.45 -2.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.626 r_dihedral_angle_4_deg 22.319 r_dihedral_angle_3_deg 19.536 r_dihedral_angle_1_deg 6.47 r_long_range_B_refined 1.542 r_long_range_B_other 1.542 r_angle_refined_deg 1.352 r_angle_other_deg 1.005 r_mcangle_it 0.601 r_mcangle_other 0.601
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.626 r_dihedral_angle_4_deg 22.319 r_dihedral_angle_3_deg 19.536 r_dihedral_angle_1_deg 6.47 r_long_range_B_refined 1.542 r_long_range_B_other 1.542 r_angle_refined_deg 1.352 r_angle_other_deg 1.005 r_mcangle_it 0.601 r_mcangle_other 0.601 r_scangle_other 0.433 r_mcbond_it 0.341 r_mcbond_other 0.34 r_scbond_it 0.236 r_scbond_other 0.236 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3028 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PHASER phasing HKL-2000 data scaling HKL-2000 data reduction