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Structural basis for dimerization of the death effector domains of Caspase-8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZBW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 8.5 293 50mM sodium chloride, 100mM Tris pH 8.5, 22.5% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.91 57.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.42 α = 90 b = 50.94 β = 105.236 c = 90.444 γ = 90
Symmetry Space Group P 1 21 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 CCD RIGAKU SATURN 944+ 2014-10-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE RIGAKU MICROMAX-002+ 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.6 54.44 99.6 4.4 3.31 5874 83.0027229807
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 THROUGHOUT 4ZBW 3.60013805027 43.6324692605 1.33793829302 5874 589 99.1727165288 0.283410396923 0.280127223015 0.281 0.312564184915 0.3179 86.6239033968
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 12.5223409334 f_angle_d 0.644138653439 f_chiral_restr 0.0381695938923 f_plane_restr 0.00309631751602 f_bond_d 0.00305486236095
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3014 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement CrystalClear data reduction d*TREK data scaling PHASER phasing