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Truncated tetramerization domain of zebrafish p53 (crystal form II)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 SITTING DROP VAPOR DIFFUSION AT 20 DEGREE C; PROTEIN SOLUTION: 17 MG/ML IN 20 MM TRIS PH 7.5, 50 MM NACL, 5 MM DTT; CRYSTALLIZATION BUFFER: 50% (W/V) POLYETHYLENE GLYCOL 200, 100 MM TRIS, PH 7.0
Crystal Properties Matthews coefficient Solvent content 3.1 60
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.529 α = 90 b = 57.529 β = 90 c = 96.875 γ = 120
Symmetry Space Group P 31 2 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 1.53 28.8 100 0.04 25.8 8 28720 2
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 1.53 1.61 100 0.53 3.5 7.5
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 NONE 1.53 49.82 27232 1448 99.97 0.15003 0.14831 0.163 0.18365 0.1991 RANDOM 32.936
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] -0.02 -0.01 -0.02 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.329 r_sphericity_free 25.5 r_sphericity_bonded 14.76 r_dihedral_angle_3_deg 11.293 r_dihedral_angle_4_deg 9.964 r_dihedral_angle_1_deg 4.162 r_scbond_it 3.908 r_mcangle_it 2.68 r_mcbond_it 2.263 r_mcbond_other 2.262
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.329 r_sphericity_free 25.5 r_sphericity_bonded 14.76 r_dihedral_angle_3_deg 11.293 r_dihedral_angle_4_deg 9.964 r_dihedral_angle_1_deg 4.162 r_scbond_it 3.908 r_mcangle_it 2.68 r_mcbond_it 2.263 r_mcbond_other 2.262 r_rigid_bond_restr 2.007 r_angle_refined_deg 1.1 r_angle_other_deg 0.73 r_chiral_restr 0.069 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 986 Nucleic Acid Atoms Solvent Atoms 72 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement