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Crystal structure of human caspase-1 in complex with 3-(2-mercapto-acetylamino)-4-oxo-pentanoic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ICE PDB ENTRY 1ICE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 274 0.1M HEPES, 2M (NH4)2SO4, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 274K
Crystal Properties Matthews coefficient Solvent content 2.64 53.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.84 α = 90 b = 62.84 β = 90 c = 160.865 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 180 IMAGE PLATE M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 0.98 SSRL BL7-1
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 2.3 20 99.2 0.072 42420 14913
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 2.3 2.38 100 0.313
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 1ICE 2.3 20 14913 14126 754 98.96 0.20669 0.204 0.1996 0.25824 0.2468 RANDOM 27.728
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] 1.02 1.02 -2.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.082 r_mcangle_it 2.69 r_scangle_it 2.623 r_scbond_it 1.621 r_mcbond_it 1.524 r_angle_refined_deg 0.895 r_nbd_refined 0.165 r_symmetry_vdw_refined 0.133 r_symmetry_hbond_refined 0.092 r_xyhbond_nbd_refined 0.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.082 r_mcangle_it 2.69 r_scangle_it 2.623 r_scbond_it 1.621 r_mcbond_it 1.524 r_angle_refined_deg 0.895 r_nbd_refined 0.165 r_symmetry_vdw_refined 0.133 r_symmetry_hbond_refined 0.092 r_xyhbond_nbd_refined 0.078 r_chiral_restr 0.06 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2069 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction d*TREK data scaling AMoRE phasing