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Caspase 8 with covalent inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.8 277 2 microliters of 100 mM inhibitor stock in DMSO was added to 100 microliters of 8.4 mg/mL protein in 20 mM Tris, 100 mM DTT, pH 8.0. Protein solution was mixed with an equal volume of well solution (1.0-1.1 M Citrate, 50 mM HEPES or PIPES pH 6.5, 25 mM DTT), VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.62 52.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.974 α = 90 b = 63.974 β = 90 c = 130.847 γ = 120
Symmetry Space Group P 31 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 CCD ADSC QUANTUM 210 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
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 1.8 20 99.6 29350 29346
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.85 96.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.8 19.94 26415 2933 99.59 0.1846 0.18208 0.1876 0.20719 0.2116 RANDOM 12.497
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] 0.64 0.32 0.64 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.464 r_dihedral_angle_4_deg 15.512 r_dihedral_angle_3_deg 12.755 r_dihedral_angle_1_deg 5.966 r_scangle_it 2.968 r_scbond_it 1.924 r_angle_refined_deg 1.242 r_mcangle_it 1.205 r_angle_other_deg 0.877 r_mcbond_it 0.751
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.464 r_dihedral_angle_4_deg 15.512 r_dihedral_angle_3_deg 12.755 r_dihedral_angle_1_deg 5.966 r_scangle_it 2.968 r_scbond_it 1.924 r_angle_refined_deg 1.242 r_mcangle_it 1.205 r_angle_other_deg 0.877 r_mcbond_it 0.751 r_symmetry_vdw_other 0.224 r_nbd_refined 0.19 r_nbd_other 0.181 r_nbtor_refined 0.18 r_symmetry_vdw_refined 0.162 r_mcbond_other 0.137 r_symmetry_hbond_refined 0.126 r_xyhbond_nbd_refined 0.116 r_nbtor_other 0.082 r_chiral_restr 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1924 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 48
Software Software Software Name Purpose HKL-2000 data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling