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structure of pro-sf-caspase-1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M72 PDB ENTRY 1M72
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 10% PEG 400, 80 mM MgCl2, 100 mM MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.66 53.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.223 α = 90 b = 106.223 β = 90 c = 113.595 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 100 CCD MARMOSAIC 325 mm CCD 16 POLE WIGGLER 2005-03-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.979 SSRL BL9-2
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 3 48.34 97.6 0.058 18.8 3.4 14666 14311 91.63
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 3 3.05 100 0.425 2.7 3.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 1M72 3 48.34 13577 721 97.5 0.23015 0.22784 0.2278 0.2746 0.2247 RANDOM 103.353
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] -2.22 -1.11 -2.22 3.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.467 r_dihedral_angle_3_deg 21.514 r_dihedral_angle_4_deg 21.398 r_dihedral_angle_1_deg 7.758 r_scangle_it 2.329 r_angle_refined_deg 1.684 r_scbond_it 1.477 r_mcangle_it 1.325 r_mcbond_it 0.712 r_symmetry_hbond_refined 0.337
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.467 r_dihedral_angle_3_deg 21.514 r_dihedral_angle_4_deg 21.398 r_dihedral_angle_1_deg 7.758 r_scangle_it 2.329 r_angle_refined_deg 1.684 r_scbond_it 1.477 r_mcangle_it 1.325 r_mcbond_it 0.712 r_symmetry_hbond_refined 0.337 r_nbtor_refined 0.325 r_nbd_refined 0.259 r_symmetry_vdw_refined 0.256 r_xyhbond_nbd_refined 0.178 r_chiral_restr 0.107 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3866 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing