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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 3.5 3 M NACL, 0.1M CITRATE PH3.5
Crystal Properties Matthews coefficient Solvent content 2.49 50.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.64 α = 90 b = 66.79 β = 114.06 c = 54.32 γ = 90
Symmetry Space Group C 1 2 1
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 2008-04-09 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 1.25 35.7 99.4 0.13 6.13 3.58 67233 -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 1.25 1.35 97.7 0.45 2.18 3.47
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 1.25 35.69 63129 3367 98.44 0.19858 0.1971 0.1984 0.22694 0.2283 RANDOM 8.994
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] 0.87 -0.66 -0.66 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.196 r_sphericity_free 18.629 r_dihedral_angle_4_deg 12.516 r_dihedral_angle_3_deg 12.111 r_dihedral_angle_1_deg 5.486 r_sphericity_bonded 4.528 r_rigid_bond_restr 2.179 r_angle_refined_deg 1.492 r_angle_other_deg 0.878 r_chiral_restr 0.101
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.196 r_sphericity_free 18.629 r_dihedral_angle_4_deg 12.516 r_dihedral_angle_3_deg 12.111 r_dihedral_angle_1_deg 5.486 r_sphericity_bonded 4.528 r_rigid_bond_restr 2.179 r_angle_refined_deg 1.492 r_angle_other_deg 0.878 r_chiral_restr 0.101 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1676 Nucleic Acid Atoms Solvent Atoms 339 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement XDS data reduction SADABS data scaling PHASER phasing