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Crystal structure of human IRE1 cytoplasmic domains in complex with a sulfonamide inhibitor.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3P23
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.2M Ammonium sulfate, 0.1M HEPES, 25% PEG3350, pH7.5
Crystal Properties Matthews coefficient Solvent content 2.91 57.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.847 α = 90 b = 86.433 β = 90 c = 91.818 γ = 90
Symmetry Space Group P 21 21 21
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 RIGAKU SATURN 944 2011-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 29.47 98.8 0.089 9.7 7.3 21786
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 2.5 2.59 97.7 0.457 4.52 7.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3P23 2.5 29.47 20377 1097 98.81 0.20386 0.2017 0.2061 0.24607 0.2557 RANDOM 43.874
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] 0.69 -0.58 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.419 r_dihedral_angle_4_deg 18.831 r_dihedral_angle_3_deg 18.423 r_dihedral_angle_1_deg 6.084 r_long_range_B_refined 5.106 r_long_range_B_other 5.078 r_scangle_other 2.692 r_mcangle_it 2.365 r_mcangle_other 2.364 r_scbond_it 1.656
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.419 r_dihedral_angle_4_deg 18.831 r_dihedral_angle_3_deg 18.423 r_dihedral_angle_1_deg 6.084 r_long_range_B_refined 5.106 r_long_range_B_other 5.078 r_scangle_other 2.692 r_mcangle_it 2.365 r_mcangle_other 2.364 r_scbond_it 1.656 r_scbond_other 1.656 r_mcbond_it 1.391 r_mcbond_other 1.391 r_angle_refined_deg 1.35 r_angle_other_deg 0.836 r_chiral_restr 0.08 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3260 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 87
Software Software Software Name Purpose REFMAC refinement