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Tudor domain of SMN in complex with a small molecule
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QQ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 1.8 M sodium acetate, pH 7.0, 0.1 M Bis-Tris propane
Crystal Properties Matthews coefficient Solvent content 2.02 38.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.893 α = 90 b = 35.893 β = 90 c = 92 γ = 90
Symmetry Space Group P 41 21 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 EIGER X 16M 2015-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.979 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.15 46 100 0.999 21.5 13.4 22319
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.15 1.17 0.785
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 4QQ6 1.15 33.44 21099 1144 99.92 0.1288 0.1278 0.1442 0.1496 0.1608 RANDOM 11.864
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] -0.11 -0.11 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.13 r_dihedral_angle_4_deg 16.536 r_dihedral_angle_3_deg 12.953 r_dihedral_angle_1_deg 7.096 r_rigid_bond_restr 2.777 r_angle_refined_deg 1.909 r_angle_other_deg 1.859 r_chiral_restr 0.12 r_bond_refined_d 0.018 r_gen_planes_refined 0.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.13 r_dihedral_angle_4_deg 16.536 r_dihedral_angle_3_deg 12.953 r_dihedral_angle_1_deg 7.096 r_rigid_bond_restr 2.777 r_angle_refined_deg 1.909 r_angle_other_deg 1.859 r_chiral_restr 0.12 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 484 Nucleic Acid Atoms Solvent Atoms 38 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling MOLREP phasing