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Crystal structure of human glutaminyl cyclase in complex with Inhibitor 1258
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8HY3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 12% to 25% PEG 4000; 0.2 M MgCl2; 0.1 M Tris-HCL pH 8.0.
Crystal Properties Matthews coefficient Solvent content 5.17 76.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 272.857 α = 90 b = 272.857 β = 90 c = 272.857 γ = 90
Symmetry Space Group F 41 3 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 195 PIXEL DECTRIS PILATUS3 X CdTe 1M 2026-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.97861 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.78 96.47 98.6 0.147 0.148 0.018 0.999 16.5 54.1 81774 31.54
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.78 1.81 87 2.186 2.319 0.748 0.31 9.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.78 82.27 1.33 81332 1989 98.06 0.2016 0.2014 0.2019 0.2115 0.2116 36.68
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 8.0002 f_angle_d 1.1214 f_chiral_restr 0.0606 f_bond_d 0.0108 f_plane_restr 0.0095
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2605 Nucleic Acid Atoms Solvent Atoms 371 Heterogen Atoms 59
Software Software Software Name Purpose xia2 data reduction xia2 data scaling PHASER phasing Coot model building PHENIX refinement PDB_EXTRACT data extraction