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The Mouse PNGase-HR23 Complex Reveals a Complete Remodulation of the Protein-Protein Interface Compared to its Yeast Orthologs
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 291 0.1 M Tris-HCl, pH 8.5, 28-32% PEG4000, 0.2 M sodium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 291K, pH 8.50
Crystal Properties Matthews coefficient Solvent content 2.27 45.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.225 α = 90 b = 52.297 β = 115.33 c = 82.548 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV 2005-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.85 50 95.9 0.051 15.5 4.5 31216 42
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.91 20.9 0.4 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 MIR THROUGHOUT 1.85 20 2 40360 29636 1579 96 0.189 0.186 0.1941 0.239 0.2451 RANDOM 42.62
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] 1.55 0.23 1.07 -2.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.561 r_dihedral_angle_4_deg 21.925 r_dihedral_angle_3_deg 17.37 r_dihedral_angle_1_deg 6.909 r_scangle_it 2.793 r_scbond_it 2.009 r_angle_refined_deg 1.547 r_mcangle_it 1.214 r_mcbond_it 1.01 r_angle_other_deg 0.915
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.561 r_dihedral_angle_4_deg 21.925 r_dihedral_angle_3_deg 17.37 r_dihedral_angle_1_deg 6.909 r_scangle_it 2.793 r_scbond_it 2.009 r_angle_refined_deg 1.547 r_mcangle_it 1.214 r_mcbond_it 1.01 r_angle_other_deg 0.915 r_symmetry_hbond_refined 0.334 r_xyhbond_nbd_refined 0.259 r_mcbond_other 0.249 r_nbd_refined 0.214 r_nbd_other 0.196 r_nbtor_refined 0.173 r_symmetry_vdw_other 0.168 r_symmetry_vdw_refined 0.153 r_chiral_restr 0.093 r_nbtor_other 0.084 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2953 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE phasing