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Crystal structure of the uridine phosphorylase from Salmonella typhimurium in unliganded state at 1.99A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 297 VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 1.95 36.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 151.66 α = 90 b = 151.66 β = 90 c = 47.92 γ = 120
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 MAR CCD 165 mm mirrors 2005-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8 EMBL/DESY, HAMBURG X13
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 1.99 10 26389 26389
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 1.994 2.044
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 1.99 10 26389 26389 1389 99.96 0.19976 0.19976 0.1975 0.1983 0.2424 0.2428 RANDOM 32.025
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] -1.81 -0.91 -1.81 2.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.758 r_dihedral_angle_3_deg 16.6 r_dihedral_angle_4_deg 16.018 r_dihedral_angle_1_deg 5.421 r_sphericity_free 4.132 r_scangle_it 2.693 r_scbond_it 2.157 r_rigid_bond_restr 1.985 r_sphericity_bonded 1.443 r_angle_refined_deg 1.287
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.758 r_dihedral_angle_3_deg 16.6 r_dihedral_angle_4_deg 16.018 r_dihedral_angle_1_deg 5.421 r_sphericity_free 4.132 r_scangle_it 2.693 r_scbond_it 2.157 r_rigid_bond_restr 1.985 r_sphericity_bonded 1.443 r_angle_refined_deg 1.287 r_mcangle_it 1.244 r_mcbond_it 1.016 r_nbtor_refined 0.295 r_nbd_refined 0.202 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.13 r_symmetry_hbond_refined 0.116 r_chiral_restr 0.086 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3503 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement MOLREP phasing