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Structure of human O-GlcNAc hydrolase with PugNAc type inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 292 0.1-0.2 M tri Ammonium citrate 16-20 % PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.5 49.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.146 α = 90 b = 101.146 β = 90 c = 283.289 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2016-08-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.979 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.6 95.44 100 0.092 0.026 16.1 13.2 46333
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 100 2.279 0.634 0.59 1.1 13.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.6 95.44 46237 1411 99.97 0.2037 0.2027 0.2351 0.2246 RANDOM 105.8739
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] -1.63 -1.63 3.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.916 r_dihedral_angle_3_deg 17.638 r_dihedral_angle_4_deg 13.721 r_dihedral_angle_1_deg 6.472 r_mcangle_it 3.831 r_angle_other_deg 3.64 r_mcbond_it 2.428 r_mcbond_other 2.427 r_angle_refined_deg 1.545 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.916 r_dihedral_angle_3_deg 17.638 r_dihedral_angle_4_deg 13.721 r_dihedral_angle_1_deg 6.472 r_mcangle_it 3.831 r_angle_other_deg 3.64 r_mcbond_it 2.428 r_mcbond_other 2.427 r_angle_refined_deg 1.545 r_chiral_restr 0.096 r_bond_refined_d 0.012 r_gen_planes_other 0.01 r_gen_planes_refined 0.006 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7359 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling REFMAC phasing