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Crystal Structure of Xanthine Phosphoribosyltransferase from Bacillus subtilis.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 298 Bis-tris, NaCl, PEG3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.2 42.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.503 α = 90 b = 115.902 β = 94.3 c = 73.985 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 150 CCD CUSTOM-MADE SBC2 2003-02-18 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97981,0.97995, 0.990 APS 19-ID
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 1.8 34.23 88.5 58399 58399
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 1.8 1.846 49.66
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 MAD THROUGHOUT 1.8 20 55482 55482 2903 88.48 0.1807 0.1807 0.17831 0.1764 0.22818 0.2238 RANDOM 22.097
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] -0.82 0.48 -1.44 2.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.406 r_dihedral_angle_4_deg 20.176 r_dihedral_angle_3_deg 13.666 r_dihedral_angle_1_deg 5.466 r_scangle_it 2.488 r_angle_refined_deg 1.853 r_scbond_it 1.536 r_mcangle_it 0.845 r_mcbond_it 0.442 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.406 r_dihedral_angle_4_deg 20.176 r_dihedral_angle_3_deg 13.666 r_dihedral_angle_1_deg 5.466 r_scangle_it 2.488 r_angle_refined_deg 1.853 r_scbond_it 1.536 r_mcangle_it 0.845 r_mcbond_it 0.442 r_nbtor_refined 0.297 r_nbd_refined 0.194 r_chiral_restr 0.167 r_symmetry_vdw_refined 0.157 r_metal_ion_refined 0.146 r_xyhbond_nbd_refined 0.108 r_symmetry_hbond_refined 0.096 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5837 Nucleic Acid Atoms Solvent Atoms 840 Heterogen Atoms 120
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction HKL-2000 data scaling SOLVE phasing autoSHARP phasing