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Thermolysin by Classical hanging drop method before high X-Ray dose on ESRF ID14-2 beamline
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KEI PDB ENTRY 1KEI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 DMSO, Ammonium sulfate, MES, hanging drop, 293K, pH6.0, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.31 46.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.526 α = 90 b = 92.526 β = 90 c = 128.553 γ = 120
Symmetry Space Group P 61 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 110 CCD ADSC QUANTUM 4 Toroidal mirror 2007-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.93 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.33 80.13 81 0.243 0.243 3 5.2 64020
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.31 1.38 24.1 0.674 0.67384 1.4 2697
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1KEI 1.33 68.04 41554 2031 55.53 0.233 0.231 0.277 0.2453 RANDOM 21.019
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] -0.5 -0.25 -0.5 0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.669 r_dihedral_angle_4_deg 14.543 r_dihedral_angle_3_deg 14.236 r_dihedral_angle_1_deg 5.38 r_scangle_it 2.3 r_scbond_it 1.615 r_angle_refined_deg 1.167 r_mcangle_it 0.916 r_mcbond_it 0.559 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.669 r_dihedral_angle_4_deg 14.543 r_dihedral_angle_3_deg 14.236 r_dihedral_angle_1_deg 5.38 r_scangle_it 2.3 r_scbond_it 1.615 r_angle_refined_deg 1.167 r_mcangle_it 0.916 r_mcbond_it 0.559 r_nbtor_refined 0.305 r_symmetry_hbond_refined 0.255 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.199 r_xyhbond_nbd_refined 0.163 r_chiral_restr 0.083 r_metal_ion_refined 0.061 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2479 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms 22
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing