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Proteinase K by Classical hanging drop Method after high X-Ray dose on ID14-2 Beamline at ESRF
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PTK PDB ENTRY 1PTK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 20mg/mL in 25mM HEPES, pH7.0 PMSF, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.04 39.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.948 α = 90 b = 67.948 β = 90 c = 102.388 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 100 CCD ADSC QUANTUM 4 Mirror 2007-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 1.2 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 0.992 56.615 86.1 0.09 0.09 13.9 5.8 114171
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) 0.99 1.05 35 0.768 0.768 0.9 1.5 6600
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 1PTK 0.992 48.06 113883 5724 86.12 0.202 0.202 0.2022 0.205 0.2074 RANDOM 8.118
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] -0.03 -0.03 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.538 r_dihedral_angle_4_deg 19.523 r_dihedral_angle_3_deg 13.283 r_dihedral_angle_1_deg 5.537 r_scangle_it 1.372 r_angle_refined_deg 1.099 r_mcangle_it 1.028 r_scbond_it 0.986 r_mcbond_it 0.592 r_symmetry_vdw_refined 0.418
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.538 r_dihedral_angle_4_deg 19.523 r_dihedral_angle_3_deg 13.283 r_dihedral_angle_1_deg 5.537 r_scangle_it 1.372 r_angle_refined_deg 1.099 r_mcangle_it 1.028 r_scbond_it 0.986 r_mcbond_it 0.592 r_symmetry_vdw_refined 0.418 r_nbtor_refined 0.315 r_symmetry_hbond_refined 0.303 r_nbd_refined 0.227 r_xyhbond_nbd_refined 0.143 r_chiral_restr 0.08 r_bond_refined_d 0.005 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2020 Nucleic Acid Atoms Solvent Atoms 403 Heterogen Atoms 1
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection REFMAC phasing