☰ Navigation Tabs
Crystal structure of p63 DBD in complex with darpin C14
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QYN 3qyn, 6fpb experimental model PDB 6FPB 3qyn, 6fpb
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293.15 25% PEG 3350, 0.2 M sodium chloride, 0.1 M HEPES pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.44 49.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.033 α = 114.46 b = 63.93 β = 94.6 c = 65.504 γ = 104.06
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 X 16M 2020-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.00003 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 44.64 91.6 0.034 0.048 0.025 0.998 22 3.7 58153
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.91 92.6 0.11 0.161 0.084 0.975 9.5 3.8
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 3qyn, 6fpb 1.85 42.69 55294 2857 91.58 0.1439 0.142 0.1554 0.1812 0.1904 RANDOM 27.074
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] -1.59 0.06 -0.2 0.07 1.15 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.75 r_dihedral_angle_4_deg 15.804 r_dihedral_angle_3_deg 12.527 r_dihedral_angle_1_deg 7.044 r_angle_refined_deg 1.547 r_angle_other_deg 1.453 r_chiral_restr 0.089 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_gen_planes_other 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.75 r_dihedral_angle_4_deg 15.804 r_dihedral_angle_3_deg 12.527 r_dihedral_angle_1_deg 7.044 r_angle_refined_deg 1.547 r_angle_other_deg 1.453 r_chiral_restr 0.089 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5334 Nucleic Acid Atoms Solvent Atoms 688 Heterogen Atoms 2
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing