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Crystal structure of human NUDT22
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 15% HighPEG, 0.1 M hepes pH 7.5, 0.1 M NaKPO, 10% EDO
Crystal Properties Matthews coefficient Solvent content 2.02 39.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.81 α = 90 b = 52.114 β = 90 c = 101.783 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS3 6M 2015-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.45 29.39 99.9 0.084 0.024 15 13 47830 19.304
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.53 99.8 1.005 2.6 13.2
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 SAD THROUGHOUT 1.45 29.39 45389 2378 99.93 0.17283 0.17099 0.1837 0.20705 0.2186 RANDOM 25.884
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] 1.4 -1.3 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.703 r_sphericity_free 16.57 r_dihedral_angle_4_deg 14.257 r_dihedral_angle_3_deg 13.116 r_sphericity_bonded 7.937 r_dihedral_angle_1_deg 6.094 r_long_range_B_refined 3.956 r_long_range_B_other 3.948 r_scangle_other 3.439 r_scbond_it 3.192
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.703 r_sphericity_free 16.57 r_dihedral_angle_4_deg 14.257 r_dihedral_angle_3_deg 13.116 r_sphericity_bonded 7.937 r_dihedral_angle_1_deg 6.094 r_long_range_B_refined 3.956 r_long_range_B_other 3.948 r_scangle_other 3.439 r_scbond_it 3.192 r_scbond_other 3.191 r_mcangle_other 3.065 r_mcangle_it 3.062 r_rigid_bond_restr 3.058 r_mcbond_it 2.58 r_mcbond_other 2.511 r_angle_refined_deg 1.656 r_angle_other_deg 1.015 r_chiral_restr 0.105 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2159 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling SHELXDE phasing