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Crystal structure of human PURA (fragment Glu57-Glu212, PUR repeat I and II)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K44
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.2 292 0.1 M Tris buffer pH 8.2, 0.2 M sodium acetate, and 30% (w/v) PEG 4,000
Crystal Properties Matthews coefficient Solvent content 2.14 42.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.92 α = 90 b = 58.14 β = 100.65 c = 81.94 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 2016-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.033100 PETRA III, DESY P11
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 1.95 50.01 98 0.998 12.1 6.9 43138
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 1.95 2 0.743 2.2
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 (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 1.95 50.01 41016 2122 98.03 0.1772 0.1743 0.1817 0.2311 0.2331 RANDOM 32.4
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] -0.21 0.17 0.63 -0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.79 r_dihedral_angle_4_deg 20.205 r_dihedral_angle_3_deg 16.682 r_dihedral_angle_1_deg 7.087 r_angle_refined_deg 2.314 r_angle_other_deg 1.157 r_chiral_restr 0.142 r_bond_refined_d 0.025 r_gen_planes_refined 0.012 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.79 r_dihedral_angle_4_deg 20.205 r_dihedral_angle_3_deg 16.682 r_dihedral_angle_1_deg 7.087 r_angle_refined_deg 2.314 r_angle_other_deg 1.157 r_chiral_restr 0.142 r_bond_refined_d 0.025 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4581 Nucleic Acid Atoms Solvent Atoms 314 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling MOLREP phasing