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Crystal Structure of Human APRT wild type in complex with Hypoxanthine, PRPP and Mg2+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6FCH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 NaOAc, PEG4000, Glycerol, Tris
Crystal Properties Matthews coefficient Solvent content 2.19 43.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.06 α = 90.08 b = 49.8 β = 93.22 c = 71.81 γ = 102.31
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 2014-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.966 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.9 71.69 90 0.073 0.092 0.054 8.6 2.4 47031 47031
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 1.9 2 84 0.156 4.4 2.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6FCH 1.9 71.69 44643 2388 90.03 0.1773 0.1754 0.2137 0.2407 RANDOM 22.045
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] 2.71 -0.24 -0.41 -0.98 -0.1 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.304 r_dihedral_angle_4_deg 19.74 r_dihedral_angle_3_deg 12.412 r_dihedral_angle_1_deg 5.184 r_mcangle_it 1.929 r_mcbond_it 1.343 r_mcbond_other 1.331 r_angle_refined_deg 1.142 r_angle_other_deg 0.578 r_chiral_restr 0.055
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.304 r_dihedral_angle_4_deg 19.74 r_dihedral_angle_3_deg 12.412 r_dihedral_angle_1_deg 5.184 r_mcangle_it 1.929 r_mcbond_it 1.343 r_mcbond_other 1.331 r_angle_refined_deg 1.142 r_angle_other_deg 0.578 r_chiral_restr 0.055 r_bond_refined_d 0.005 r_bond_other_d 0.005 r_gen_planes_refined 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5448 Nucleic Acid Atoms Solvent Atoms 345 Heterogen Atoms 138
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PHASER phasing PDB_EXTRACT data extraction Coot model building MxCuBE data collection iMOSFLM data reduction