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Proteinase K by LB nanotemplate method before high X-Ray dose on ESRF ID23-1 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, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.02 38.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.76 α = 90 b = 67.76 β = 90 c = 101.609 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 CCD ADSC QUANTUM 210 mirror 2007-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97625 ESRF ID23-1
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 1.426 56.375 72.2 0.115 0.115 4.8 4.2 32221
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) 1.43 1.5 21.4 0.485 0.485 1.3 1.3 1344
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 1.43 40.65 32156 1613 71.81 0.213 0.211 0.2098 0.241 0.2389 RANDOM 7.214
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] -0.23 -0.23 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.001 r_dihedral_angle_4_deg 22.867 r_dihedral_angle_3_deg 14.428 r_dihedral_angle_1_deg 5.541 r_scangle_it 1.56 r_mcangle_it 1.202 r_angle_refined_deg 1.126 r_scbond_it 1.109 r_mcbond_it 0.732 r_symmetry_hbond_refined 0.489
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.001 r_dihedral_angle_4_deg 22.867 r_dihedral_angle_3_deg 14.428 r_dihedral_angle_1_deg 5.541 r_scangle_it 1.56 r_mcangle_it 1.202 r_angle_refined_deg 1.126 r_scbond_it 1.109 r_mcbond_it 0.732 r_symmetry_hbond_refined 0.489 r_symmetry_vdw_refined 0.453 r_metal_ion_refined 0.34 r_nbtor_refined 0.318 r_xyhbond_nbd_refined 0.23 r_nbd_refined 0.229 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.005
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 ADSC data collection REFMAC phasing