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Structure of p73 SAM domain in complex with DARPin B9
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6FP7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 293 20% PEG6000, 0.1M bicine pH 9.0
Crystal Properties Matthews coefficient Solvent content 2.13 42.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.304 α = 90 b = 31.234 β = 95.97 c = 68.355 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS EIGER X 16M 2021-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1 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 1.8 67.984 98.6 0.041 0.049 0.026 0.999 19.7 6.7 18890
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 1.8 1.84 99.4 0.342 0.403 0.212 0.942 6.8
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.8 67.984 18880 968 98.231 0.203 0.2012 0.2335 0.2407 31.707
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] -0.034 -2.082 1.291 -0.804
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.11 r_dihedral_angle_3_deg 14.943 r_dihedral_angle_4_deg 6.888 r_lrange_it 6.754 r_lrange_other 6.748 r_dihedral_angle_1_deg 6.181 r_scangle_it 5.348 r_scangle_other 5.337 r_mcangle_other 3.696 r_mcangle_it 3.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.11 r_dihedral_angle_3_deg 14.943 r_dihedral_angle_4_deg 6.888 r_lrange_it 6.754 r_lrange_other 6.748 r_dihedral_angle_1_deg 6.181 r_scangle_it 5.348 r_scangle_other 5.337 r_mcangle_other 3.696 r_mcangle_it 3.69 r_scbond_it 3.535 r_scbond_other 3.508 r_mcbond_it 2.695 r_mcbond_other 2.677 r_angle_refined_deg 1.58 r_angle_other_deg 1.387 r_symmetry_nbd_refined 0.229 r_nbd_refined 0.219 r_nbd_other 0.191 r_symmetry_nbd_other 0.172 r_nbtor_refined 0.162 r_xyhbond_nbd_refined 0.16 r_symmetry_xyhbond_nbd_refined 0.146 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.074 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1646 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PHASER phasing XDS data reduction