☰ Navigation Tabs
Structural Basis of DNA Recognition by p53 Tetramers (complex III)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AC0 PDB ENTRY 2AC0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 293 Ammonium Chloride, PEG 3350, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.4 47.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.552 α = 83.08 b = 58.19 β = 87.94 c = 77.545 γ = 73.56
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ Osmic Inc. MSC - Blue Confocal Mirrors 2004-10-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 1.85 40 93.9 0.045 28.7 3.9 73053 73053 34.2
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) 1.85 1.88 82.6 82.6 0.35 3.5 3.6 3266
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 ISOMORPHOUS REPLACEMENT THROUGHOUT PDB ENTRY 2AC0 1.85 38.49 73053 71744 3618 98.21 0.166 0.166 0.162 0.1689 0.225 0.2288 RANDOM 39.023
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] -0.79 -0.19 0.47 -0.46 0.49 1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.72 r_dihedral_angle_4_deg 17.561 r_dihedral_angle_3_deg 13.416 r_dihedral_angle_1_deg 6.78 r_scangle_it 6.424 r_scbond_it 4.671 r_mcangle_it 3.448 r_mcbond_it 2.462 r_angle_refined_deg 1.666 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.72 r_dihedral_angle_4_deg 17.561 r_dihedral_angle_3_deg 13.416 r_dihedral_angle_1_deg 6.78 r_scangle_it 6.424 r_scbond_it 4.671 r_mcangle_it 3.448 r_mcbond_it 2.462 r_angle_refined_deg 1.666 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.229 r_symmetry_vdw_refined 0.213 r_nbd_refined 0.201 r_xyhbond_nbd_refined 0.185 r_chiral_restr 0.109 r_metal_ion_refined 0.049 r_bond_refined_d 0.016 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6144 Nucleic Acid Atoms 912 Solvent Atoms 998 Heterogen Atoms 4
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction CNS phasing