☰ Navigation Tabs
ATAD2 in complex with FragLite10
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DAI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1M BisTris pH 6-7, 1.7-2.1M Ammonium sulphate
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.191 α = 90 b = 81.191 β = 90 c = 134.966 γ = 120
Symmetry Space Group P 65 2 2
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 PILATUS 6M 2019-07-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.979 Diamond I04-1
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 1.51 70.31 100 0.175 0.183 0.054 0.997 6.9 19.4 41986
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 1.51 1.54 9.569 10.598 4.466 0.239 9.6
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3DAI 1.51 70.31 41877 2104 99.826 0.224 0.2218 0.2226 0.2558 0.2576 45.639
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] 1.817 0.908 1.817 -5.894
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.018 r_dihedral_angle_3_deg 16.519 r_dihedral_angle_4_deg 15.875 r_lrange_it 11.109 r_lrange_other 11.106 r_scangle_it 9.098 r_scangle_other 9.04 r_scbond_it 6.048 r_scbond_other 6.002 r_mcangle_it 5.222
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.018 r_dihedral_angle_3_deg 16.519 r_dihedral_angle_4_deg 15.875 r_lrange_it 11.109 r_lrange_other 11.106 r_scangle_it 9.098 r_scangle_other 9.04 r_scbond_it 6.048 r_scbond_other 6.002 r_mcangle_it 5.222 r_mcangle_other 5.219 r_dihedral_angle_1_deg 5.106 r_mcbond_it 4.221 r_mcbond_other 4.219 r_angle_refined_deg 1.687 r_angle_other_deg 1.476 r_xyhbond_nbd_refined 0.276 r_symmetry_xyhbond_nbd_refined 0.253 r_nbd_other 0.232 r_nbd_refined 0.212 r_symmetry_nbd_refined 0.189 r_symmetry_nbd_other 0.178 r_nbtor_refined 0.172 r_symmetry_xyhbond_nbd_other 0.142 r_xyhbond_nbd_other 0.118 r_chiral_restr 0.086 r_symmetry_nbtor_other 0.082 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1084 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement REFMAC refinement Aimless data scaling xia2 data reduction xia2 data scaling PHASER phasing