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Crystal Structure of Human Cathepsin S Bound to a Non-covalent Inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 4.6 295 21% PEG 8000, 150 mM ammonium sulfate, 100 mM sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.71 54.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.692 α = 90 b = 85.692 β = 90 c = 151.496 γ = 90
Symmetry Space Group P 41 2 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 MAR CCD 165 mm 2008-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.979 APS 31-ID
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 1.8 28.07 99.5 7 7.3 53044
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 1.8 28.07 50867 1022 97.78 0.17616 0.1757 0.1828 0.19914 0.2055 RANDOM 29.166
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] -0.36 -0.36 0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.446 r_dihedral_angle_3_deg 11.621 r_dihedral_angle_4_deg 10.182 r_dihedral_angle_1_deg 5.358 r_long_range_B_refined 5.263 r_long_range_B_other 4.87 r_scangle_other 3.404 r_scbond_other 2.209 r_scbond_it 2.19 r_mcangle_it 2.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.446 r_dihedral_angle_3_deg 11.621 r_dihedral_angle_4_deg 10.182 r_dihedral_angle_1_deg 5.358 r_long_range_B_refined 5.263 r_long_range_B_other 4.87 r_scangle_other 3.404 r_scbond_other 2.209 r_scbond_it 2.19 r_mcangle_it 2.02 r_mcangle_other 2.019 r_mcbond_it 1.435 r_mcbond_other 1.428 r_angle_refined_deg 1.227 r_angle_other_deg 0.98 r_chiral_restr 0.073 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.004 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3381 Nucleic Acid Atoms Solvent Atoms 417 Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement