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Human p53 core domain with hot spot mutation R249S (I)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TSR PDB ENTRY 1TSR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 293 0.15M Sodium acetate, 20% PEG 3350, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.07 40.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.157 α = 90 b = 44.157 β = 90 c = 329.369 γ = 120
Symmetry Space Group P 65 2 2
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 ADSC QUANTUM 4 Diamond (111), Ge(220) 2005-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.93930 ESRF ID14-4
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 1.2 17.34 96.1 0.054 28.1 4.6 59415 59415 14.6
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) 1.2 1.22 75.4 0.3 2.4 1.9 2263
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 PDB ENTRY 1TSR 1.2 17.34 56307 56307 3010 96.13 0.1772 0.1772 0.1759 0.179 0.2015 0.2052 RANDOM 20.026
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.868 r_dihedral_angle_4_deg 12.192 r_dihedral_angle_3_deg 11.242 r_sphericity_free 10.271 r_sphericity_bonded 8.187 r_scangle_it 6.235 r_dihedral_angle_1_deg 5.53 r_scbond_it 5.071 r_mcangle_it 4.527 r_mcbond_it 3.489
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.868 r_dihedral_angle_4_deg 12.192 r_dihedral_angle_3_deg 11.242 r_sphericity_free 10.271 r_sphericity_bonded 8.187 r_scangle_it 6.235 r_dihedral_angle_1_deg 5.53 r_scbond_it 5.071 r_mcangle_it 4.527 r_mcbond_it 3.489 r_rigid_bond_restr 2.994 r_angle_refined_deg 1.077 r_nbtor_refined 0.302 r_nbd_refined 0.188 r_symmetry_vdw_refined 0.144 r_symmetry_hbond_refined 0.138 r_xyhbond_nbd_refined 0.117 r_metal_ion_refined 0.089 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1498 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing