☰ Navigation Tabs
HDM2 (17-111, WILDTYPE) COMPLEXED WITH COMPOUND 10 AT 1.21A; Structural states of Hdm2 and HdmX: X-ray elucidation of adaptations and binding interactions for different chemical compound classes
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4OQ3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 298 2.4M AmSO4, 0.1M NaCitrate, 0.2M NaCl, 0.1M TRIS
Crystal Properties Matthews coefficient Solvent content 1.91 35.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.929 α = 90 b = 58.976 β = 106.82 c = 39.88 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 CCD MARMOSAIC 225 mm CCD 2009-03-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.00000 SLS X10SA
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 1.21 50 99.5 0.069 28.44 6.1 50939
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 1.21 1.25 95.6 0.262 4.54 5.6
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 4OQ3 1.21 20 48324 2580 99.62 0.1453 0.1447 0.1436 0.1558 0.1576 RANDOM 12.183
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] 0.08 -0.06 -0.27 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.871 r_dihedral_angle_4_deg 14.878 r_dihedral_angle_3_deg 11.112 r_dihedral_angle_1_deg 5.815 r_sphericity_free 4.255 r_sphericity_bonded 3.04 r_angle_refined_deg 1.3 r_rigid_bond_restr 1.214 r_chiral_restr 0.085 r_bond_refined_d 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.871 r_dihedral_angle_4_deg 14.878 r_dihedral_angle_3_deg 11.112 r_dihedral_angle_1_deg 5.815 r_sphericity_free 4.255 r_sphericity_bonded 3.04 r_angle_refined_deg 1.3 r_rigid_bond_restr 1.214 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1544 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 78
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction