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Truncated tetramerization domain of zebrafish p53 (crystal form III)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 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: 1.8 M SODIUM/POTASSIUM PHOSPHATE, PH 5.0.
Crystal Properties Matthews coefficient Solvent content 2 38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.734 α = 90 b = 45.717 β = 92.6 c = 55.486 γ = 90
Symmetry Space Group C 1 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 1.1 27.7 94.8 0.06 12.1 3.5 68831 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 1.1 1.16 87.4 0.17 6.5 3.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.1 27.7 65375 3456 94.49 0.14415 0.14298 0.1547 0.16588 0.1756 RANDOM 12.823
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] -0.04 0.64 0.39 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.902 r_sphericity_free 27.047 r_dihedral_angle_4_deg 15.48 r_dihedral_angle_3_deg 10.431 r_sphericity_bonded 7.656 r_dihedral_angle_1_deg 4.761 r_scbond_it 1.604 r_rigid_bond_restr 1.48 r_mcangle_it 1.35 r_angle_refined_deg 1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.902 r_sphericity_free 27.047 r_dihedral_angle_4_deg 15.48 r_dihedral_angle_3_deg 10.431 r_sphericity_bonded 7.656 r_dihedral_angle_1_deg 4.761 r_scbond_it 1.604 r_rigid_bond_restr 1.48 r_mcangle_it 1.35 r_angle_refined_deg 1.24 r_mcbond_it 0.972 r_mcbond_other 0.969 r_angle_other_deg 0.689 r_chiral_restr 0.075 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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 1541 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement