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Crystal structure of the complex of Porcine Pancreatic Trypsin with 1/2SLPI
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AVW 1AVW, 2Z7F experimental model PDB 2Z7F 1AVW, 2Z7F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 25% PEG4000, 0.1M Na-Citrate, 200mM Ammonium Sulfate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.78 55.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.535 α = 90 b = 118.61 β = 90.74 c = 93.393 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE RIGAKU 2005-10-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.0
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2 93.25 96.8 57599 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 95.8
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 1AVW, 2Z7F 2 50.06 54688 2911 96.78 0.1895 0.1867 0.1868 0.2416 0.2414 RANDOM 30.2024
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] 0.15 -0.18 0.02 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.099 r_dihedral_angle_4_deg 21.559 r_dihedral_angle_3_deg 15.722 r_dihedral_angle_1_deg 7.179 r_scangle_it 3.72 r_scbond_it 2.531 r_mcangle_it 1.722 r_angle_refined_deg 1.701 r_mcbond_it 1.068 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.099 r_dihedral_angle_4_deg 21.559 r_dihedral_angle_3_deg 15.722 r_dihedral_angle_1_deg 7.179 r_scangle_it 3.72 r_scbond_it 2.531 r_mcangle_it 1.722 r_angle_refined_deg 1.701 r_mcbond_it 1.068 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.256 r_nbd_refined 0.207 r_symmetry_hbond_refined 0.186 r_xyhbond_nbd_refined 0.164 r_metal_ion_refined 0.113 r_chiral_restr 0.109 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5568 Nucleic Acid Atoms Solvent Atoms 516 Heterogen Atoms 88
Software Software Software Name Purpose DENZO data reduction d*TREK data reduction MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data scaling