☰ Navigation Tabs
ATAD2 in complex with 1-Methyl-2-quinolone
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 293 0.1M BisTris pH 6-7, 1.7-2.1M Ammonium sulphate
Crystal Properties Matthews coefficient Solvent content 4.08 69.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.507 α = 90 b = 79.507 β = 90 c = 138.224 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 IMAGE PLATE MAR scanner 300 mm plate 2014-08-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54190
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 2.18 38.322 95.2 0.059 0.081 0.054 0.997 8.4 2.4 13347
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 2.18 38.29 95.2 0.016 0.022 0.015 0.999 2.2
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 2.18 38.322 13335 665 94.387 0.208 0.2064 0.2065 0.2461 0.2462 32.33
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] 0.042 0.021 0.042 -0.136
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.554 r_dihedral_angle_4_deg 18.563 r_dihedral_angle_3_deg 18.251 r_lrange_it 8.245 r_scangle_it 6.529 r_dihedral_angle_1_deg 5.841 r_scbond_it 4.348 r_mcangle_it 3.53 r_mcbond_it 2.491 r_angle_refined_deg 1.769
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.554 r_dihedral_angle_4_deg 18.563 r_dihedral_angle_3_deg 18.251 r_lrange_it 8.245 r_scangle_it 6.529 r_dihedral_angle_1_deg 5.841 r_scbond_it 4.348 r_mcangle_it 3.53 r_mcbond_it 2.491 r_angle_refined_deg 1.769 r_nbtor_refined 0.327 r_symmetry_nbd_refined 0.282 r_nbd_refined 0.232 r_xyhbond_nbd_refined 0.185 r_symmetry_xyhbond_nbd_refined 0.181 r_chiral_restr 0.118 r_bond_refined_d 0.008 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1069 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing