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Proteinase K by Classical hanging drop method before high X Ray dose on ESRF ID 14-2 beamline
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 of protein in 25mM HEPES pH7.0, reservoir solution composed by 25mM HEPES and 400mM Na/K tartrate at pH7.0. Onto the siliconized glass cover slides were mixed 4 microlitres of protein solution with 4 microlitres of reservoir solution., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.04 39.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.943 α = 90 b = 67.943 β = 90 c = 102.378 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 110 CCD ADSC QUANTUM 4 Toroidal 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 0.99 56.614 86.4 0.092 0.092 5.7 5.8 114135
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 36.2 0.763 0.763 1 1.5 6813
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 1PTK 0.99 56.61 113834 5714 86.63 0.226 0.226 0.235 0.2275 RANDOM 7.027
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] -0.05 -0.05 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.617 r_dihedral_angle_4_deg 14.598 r_dihedral_angle_3_deg 14.313 r_dihedral_angle_1_deg 5.713 r_scangle_it 2.042 r_scbond_it 1.483 r_angle_refined_deg 1.18 r_mcangle_it 0.804 r_mcbond_it 0.453 r_symmetry_vdw_refined 0.326
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.617 r_dihedral_angle_4_deg 14.598 r_dihedral_angle_3_deg 14.313 r_dihedral_angle_1_deg 5.713 r_scangle_it 2.042 r_scbond_it 1.483 r_angle_refined_deg 1.18 r_mcangle_it 0.804 r_mcbond_it 0.453 r_symmetry_vdw_refined 0.326 r_nbtor_refined 0.303 r_symmetry_hbond_refined 0.243 r_nbd_refined 0.206 r_chiral_restr 0.088 r_xyhbond_nbd_refined 0.084 r_metal_ion_refined 0.083 r_bond_refined_d 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2021 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 1
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction