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Pancreatic Bovine Trypsin with a boronic acid inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3A7X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 25% polyethylene glycol 8000 (PEG 8K), 0.2 M ammonium sulfate and 0.1 M sodium cacodylate buffer (pH 6.5)
Crystal Properties Matthews coefficient Solvent content 2.2 44.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.49 α = 90 b = 56.71 β = 90 c = 66.5 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2M 2012-02-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.976 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.42 42.15 99.4 0.038 0.02 22.3 4.5 39086 11.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.42 1.5 99.4 0.09 0.05 11.9 4.6
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 3A7X 1.42 42.15 37077 1955 99.16 0.09655 0.09462 0.13283 0.1577 RANDOM 13.284
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 -0.04 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.847 r_sphericity_free 32.967 r_dihedral_angle_4_deg 17.941 r_rigid_bond_restr 14.639 r_dihedral_angle_3_deg 11.867 r_sphericity_bonded 9.118 r_dihedral_angle_1_deg 6.484 r_long_range_B_refined 4.226 r_scangle_other 3.639 r_long_range_B_other 3.562
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.847 r_sphericity_free 32.967 r_dihedral_angle_4_deg 17.941 r_rigid_bond_restr 14.639 r_dihedral_angle_3_deg 11.867 r_sphericity_bonded 9.118 r_dihedral_angle_1_deg 6.484 r_long_range_B_refined 4.226 r_scangle_other 3.639 r_long_range_B_other 3.562 r_scbond_other 3.327 r_scbond_it 3.326 r_angle_refined_deg 2.816 r_angle_other_deg 2.24 r_mcangle_other 1.877 r_mcangle_it 1.875 r_mcbond_it 1.549 r_mcbond_other 1.546 r_chiral_restr 0.192 r_bond_refined_d 0.03 r_gen_planes_refined 0.015 r_gen_planes_other 0.011 r_bond_other_d 0.007 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1629 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing