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Crystal structure of unautoprocessed form of Tk-subtilisin soaked by 10mM CaCl2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2E1P PDB ENTRY 2E1P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 277 4.0M Sodium Formate, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.53 51.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.658 α = 90 b = 124.173 β = 90 c = 72.314 γ = 90
Symmetry Space Group I 2 2 2
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 JUPITER 210 2006-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0 SPring-8 BL38B1
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 1.87 50 99.9 0.042 45 34961
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 1.87 1.93 99.9 0.188 7.4
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 2E1P 1.87 46.33 33178 1752 99.6 0.17155 0.16941 0.1807 0.21191 0.2245 RANDOM 19.491
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 r_dihedral_angle_3_deg 17.847 r_scangle_it 5.437 r_dihedral_angle_1_deg 5.351 r_scbond_it 3.585 r_mcangle_it 2.366 r_angle_refined_deg 2.279 r_mcbond_it 1.429 r_angle_other_deg 1.057 r_symmetry_hbond_refined 0.477 r_symmetry_vdw_other 0.332
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.847 r_scangle_it 5.437 r_dihedral_angle_1_deg 5.351 r_scbond_it 3.585 r_mcangle_it 2.366 r_angle_refined_deg 2.279 r_mcbond_it 1.429 r_angle_other_deg 1.057 r_symmetry_hbond_refined 0.477 r_symmetry_vdw_other 0.332 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.247 r_chiral_restr 0.241 r_nbd_other 0.227 r_xyhbond_nbd_refined 0.219 r_metal_ion_refined 0.213 r_bond_refined_d 0.029 r_gen_planes_refined 0.011 r_gen_planes_other 0.003 r_xyhbond_nbd_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2861 Nucleic Acid Atoms Solvent Atoms 410 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing