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Structure of CatK covalently bound to a dioxo-triazine inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 3.4 298 30%(W/V) PEG 4000 and 150 mM Ammonium Sulfate pH 3.4
3 microliter of protein at 10 mg/ml and 2 microliter of reservoir solution. , VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.08 40.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.452 α = 90 b = 69.338 β = 98.83 c = 90.85 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 100 IMAGE PLATE MARRESEARCH MIRRORS 2004-02-13 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.017 27.461 93.1 0.068 0.068 13 2.3 23819
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.01 2.12 82.7 0.181 0.181 4.1 2.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 2.02 27.47 25584 23818 1219 100 0.202 0.194 0.1994 0.263 0.1961 RANDOM 18.42
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] -0.39 -0.33 1.24 -0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.428 r_dihedral_angle_4_deg 15.914 r_dihedral_angle_3_deg 12.881 r_scangle_it 3.192 r_angle_refined_deg 2.202 r_scbond_it 2.1 r_mcangle_it 2.071 r_mcbond_it 1.231 r_dihedral_angle_1_deg 1.167 r_chiral_restr 0.098
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.428 r_dihedral_angle_4_deg 15.914 r_dihedral_angle_3_deg 12.881 r_scangle_it 3.192 r_angle_refined_deg 2.202 r_scbond_it 2.1 r_mcangle_it 2.071 r_mcbond_it 1.231 r_dihedral_angle_1_deg 1.167 r_chiral_restr 0.098 r_gen_planes_refined 0.055 r_bond_refined_d 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3257 Nucleic Acid Atoms Solvent Atoms 616 Heterogen Atoms 58
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction AMoRE phasing