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Crystal structure of APRT from Thermus thermophilus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIQUID DIFFUSION 296 SA 25%
Crystal Properties Matthews coefficient Solvent content 2.33 47.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.86 α = 90 b = 82.16 β = 102.58 c = 91.39 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 PILATUS3 6M 2016-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.8 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 20 96.6 15.24 3.4 25557
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.77
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 THROUGHOUT 2.7 20 25506 1354 96.21 0.23567 0.24812 0.2899 0.27118 0.3548 RANDOM 46.147
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] 0.3 -0.43 -0.77 0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.785 r_dihedral_angle_3_deg 23.576 r_dihedral_angle_4_deg 18.906 r_dihedral_angle_1_deg 10.921 r_long_range_B_refined 8.52 r_long_range_B_other 8.52 r_mcangle_it 3.688 r_mcangle_other 3.687 r_scangle_other 2.492 r_mcbond_other 2.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.785 r_dihedral_angle_3_deg 23.576 r_dihedral_angle_4_deg 18.906 r_dihedral_angle_1_deg 10.921 r_long_range_B_refined 8.52 r_long_range_B_other 8.52 r_mcangle_it 3.688 r_mcangle_other 3.687 r_scangle_other 2.492 r_mcbond_other 2.083 r_mcbond_it 2.082 r_angle_refined_deg 1.754 r_scbond_it 1.364 r_scbond_other 1.364 r_angle_other_deg 1.177 r_chiral_restr 0.112 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7731 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing