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Streptomyces PAC13 with uridine uronic acid
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.8 293 16% PEG3350,0.1M MgCl2,0.2MBis-Tris pH 8.8
Crystal Properties Matthews coefficient Solvent content 2.55 51.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.489 α = 90 b = 66.489 β = 90 c = 55.232 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 2016-06-17 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 57.85 99.3 0.05 19.4 3.7 13723 16.66
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 1.93 99.3 0.248 5 3.5
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 57.58 12994 673 98.91 0.15508 0.15311 0.167 0.19512 0.202 RANDOM 16.655
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] 0.06 0.03 0.06 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.875 r_dihedral_angle_4_deg 14.275 r_dihedral_angle_3_deg 13.264 r_dihedral_angle_1_deg 12.961 r_long_range_B_refined 5.931 r_long_range_B_other 5.399 r_scangle_other 2.644 r_scbond_it 1.57 r_scbond_other 1.569 r_mcangle_it 1.535
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.875 r_dihedral_angle_4_deg 14.275 r_dihedral_angle_3_deg 13.264 r_dihedral_angle_1_deg 12.961 r_long_range_B_refined 5.931 r_long_range_B_other 5.399 r_scangle_other 2.644 r_scbond_it 1.57 r_scbond_other 1.569 r_mcangle_it 1.535 r_mcangle_other 1.535 r_angle_refined_deg 1.222 r_mcbond_it 0.92 r_mcbond_other 0.917 r_angle_other_deg 0.709 r_chiral_restr 0.083 r_gen_planes_refined 0.008 r_bond_refined_d 0.006 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 977 Nucleic Acid Atoms Solvent Atoms 208 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling