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MOUSE CATHEPSIN S WITH COVALENT LIGAND
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other IN HOUSE STRUCTURES
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 25% PEG 3350, 0.1 M BISTRIS PH5.5, 0.2M LI2SO4
Crystal Properties Matthews coefficient Solvent content 2.24 45.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.884 α = 90.04 b = 66.984 β = 96.68 c = 103.33 γ = 89.9
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 MARRESEARCH 2009-07-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.7 46 89.2 0.05 9.57 1.72 167038 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.79 55 0.18 3.71 0.93
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 IN HOUSE STRUCTURES 1.7 43.49 155551 8262 87.49 0.20378 0.20184 0.2109 0.23997 0.2452 RANDOM 22.636
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] -0.21 -0.05 -0.05 0.04 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.51 r_dihedral_angle_4_deg 17.846 r_dihedral_angle_3_deg 12.622 r_dihedral_angle_1_deg 5.382 r_angle_refined_deg 1.476 r_angle_other_deg 0.979 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.51 r_dihedral_angle_4_deg 17.846 r_dihedral_angle_3_deg 12.622 r_dihedral_angle_1_deg 5.382 r_angle_refined_deg 1.476 r_angle_other_deg 0.979 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13408 Nucleic Acid Atoms Solvent Atoms 1135 Heterogen Atoms 304
Software Software Software Name Purpose REFMAC refinement XDS data reduction SADABS data scaling PHASER phasing