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Multicrystal structure of Proteinase K at room temperature using a multilayer monochromator.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ID8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol 4 VAPOR DIFFUSION, SITTING DROP 7.5 293 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol 3 VAPOR DIFFUSION, SITTING DROP 7.5 293 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol 2 VAPOR DIFFUSION, SITTING DROP 7.5 293 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.368 α = 90 b = 68.368 β = 90 c = 103.978 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 293 PIXEL DECTRIS EIGER2 X 4M multilayer monochromator 2019-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE VMXi 0.979 Diamond VMXi
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.2 57.13 100 0.064 0.066 0.017 0.999 30.5 14.7 13162 9.989
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.24 100 0.132 0.143 0.052 0.986 12.2 7.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2ID8 2.2 57.126 1.36 13109 1312 99.98 0.111 0.1055 0.1105 0.1611 0.1611
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 f_dihedral_angle_d 2.821 f_angle_d 0.895 f_chiral_restr 0.052 f_bond_d 0.009 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2022 Nucleic Acid Atoms Solvent Atoms 171 Heterogen Atoms 19
Software Software Software Name Purpose PHENIX refinement DIALS data reduction DIALS data scaling PHASER phasing