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Crystal structure of human insulin degrading enzyme in complex with insulin-like growth factor II
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 10-13% PEG MME 5000, 100 mM HEPES pH 7.0, 4-14% Tacsimate, 10% dioxane, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.93 68.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 263.033 α = 90 b = 263.033 β = 90 c = 90.816 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE MAR scanner 345 mm plate 2007-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.28 50 99.9 0.134 0.105 20.1 5.4 162414 162414 1 1 13.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.28 2.36 99.9 0.507 0.539 2.1 3.1 15661
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 2.28 50 162414 154214 8139 99.71 0.19746 0.19577 0.2058 0.22983 0.2371 RANDOM 36.385
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] -0.27 -0.14 -0.27 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.821 r_dihedral_angle_4_deg 21.843 r_dihedral_angle_3_deg 17.664 r_dihedral_angle_1_deg 5.859 r_scangle_it 3.163 r_scbond_it 1.957 r_angle_refined_deg 1.336 r_mcangle_it 1.153 r_mcbond_it 0.695 r_symmetry_hbond_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.821 r_dihedral_angle_4_deg 21.843 r_dihedral_angle_3_deg 17.664 r_dihedral_angle_1_deg 5.859 r_scangle_it 3.163 r_scbond_it 1.957 r_angle_refined_deg 1.336 r_mcangle_it 1.153 r_mcbond_it 0.695 r_symmetry_hbond_refined 0.311 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.254 r_nbd_refined 0.207 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.095 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15685 Nucleic Acid Atoms Solvent Atoms 724 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling PHASES phasing