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Structure of E. coli uridine phosphorylase complexed to 5-benzylacyclouridine (BAU)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 295 PEG 4000, MES, GLYCEROL, PH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.44 49.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.369 α = 90 b = 125.965 β = 90 c = 141.334 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 CCD ADSC QUANTUM 315 2003-07-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 8-BM 0.979 APS 8-BM
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 2.2 38.07 99.9 0.054 6.5 83127 83127
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 2.2 2.28 99.9 0.331 6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.2 38.07 72188 72188 8066 96.39 0.21878 0.21878 0.2155 0.2065 0.24858 0.2386 RANDOM 22.732
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] -1.97 0.26 1.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.681 r_angle_refined_deg 0.883 r_scangle_it 0.603 r_scbond_it 0.354 r_mcangle_it 0.259 r_nbd_refined 0.164 r_mcbond_it 0.138 r_symmetry_vdw_refined 0.132 r_symmetry_hbond_refined 0.107 r_xyhbond_nbd_refined 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.681 r_angle_refined_deg 0.883 r_scangle_it 0.603 r_scbond_it 0.354 r_mcangle_it 0.259 r_nbd_refined 0.164 r_mcbond_it 0.138 r_symmetry_vdw_refined 0.132 r_symmetry_hbond_refined 0.107 r_xyhbond_nbd_refined 0.096 r_chiral_restr 0.06 r_bond_refined_d 0.005 r_gen_planes_refined 0.002 r_metal_ion_refined 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11211 Nucleic Acid Atoms Solvent Atoms 561 Heterogen Atoms 153
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement MOSFLM data reduction CNS phasing