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Streptomyces PAC13 (H42Q) with uridine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 0.2 M potassium sodium tartrate, 20 % w/v PEG-335
Crystal Properties Matthews coefficient Solvent content 2.55 51.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.39 α = 90 b = 66.39 β = 90 c = 54.841 γ = 120
Symmetry Space Group P 32 2 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 CCD RIGAKU SATURN A200 2016-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.78 57.5 99.5 0.051 19.2 3.6 13630
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 1.78 1.92 99.7 0.376 3.4 3.4
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 1.78 57.5 12900 672 99.07 0.16673 0.1654 0.1787 0.19407 0.2073 RANDOM 21.196
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] -0.24 -0.12 -0.24 0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.308 r_dihedral_angle_3_deg 13.693 r_dihedral_angle_4_deg 13.099 r_dihedral_angle_1_deg 6.847 r_long_range_B_refined 5.916 r_long_range_B_other 5.913 r_scangle_other 3.16 r_scbond_it 1.848 r_scbond_other 1.848 r_mcangle_other 1.666
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.308 r_dihedral_angle_3_deg 13.693 r_dihedral_angle_4_deg 13.099 r_dihedral_angle_1_deg 6.847 r_long_range_B_refined 5.916 r_long_range_B_other 5.913 r_scangle_other 3.16 r_scbond_it 1.848 r_scbond_other 1.848 r_mcangle_other 1.666 r_mcangle_it 1.664 r_angle_refined_deg 1.125 r_mcbond_it 1.016 r_mcbond_other 1.006 r_angle_other_deg 0.673 r_chiral_restr 0.07 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 968 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling