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Cathepsin S in complex with non covalent arylaminoethyl amide.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F1G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 278 20% PEG-8000, 0.4M Lithium Sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.82 56.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.532 α = 90 b = 85.532 β = 90 c = 150.403 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 ADSC QUANTUM 4 2003-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 1 ALS 5.0.3
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 1.55 84.2 96.2 0.058 0.058 21.5 3.54 73915 73915
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) 1.55 1.62 86.3 0.509 0.509 2.33 6804
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION RIGID BODY REFINEMENT THROUGHOUT 2F1G 1.55 84.2 73915 73915 3951 96.19 0.15669 0.15669 0.15543 0.17994 RANDOM 12.839
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] -0.2 -0.2 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.74 r_dihedral_angle_4_deg 16.912 r_dihedral_angle_3_deg 11.112 r_dihedral_angle_1_deg 5.542 r_scangle_it 4.703 r_scbond_it 3.396 r_mcangle_it 1.605 r_angle_refined_deg 1.422 r_mcbond_it 1.352 r_angle_other_deg 0.768
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.74 r_dihedral_angle_4_deg 16.912 r_dihedral_angle_3_deg 11.112 r_dihedral_angle_1_deg 5.542 r_scangle_it 4.703 r_scbond_it 3.396 r_mcangle_it 1.605 r_angle_refined_deg 1.422 r_mcbond_it 1.352 r_angle_other_deg 0.768 r_symmetry_vdw_refined 0.599 r_mcbond_other 0.281 r_nbd_refined 0.214 r_nbtor_refined 0.196 r_symmetry_vdw_other 0.195 r_nbd_other 0.194 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.144 r_nbtor_other 0.088 r_chiral_restr 0.079 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3448 Nucleic Acid Atoms Solvent Atoms 591 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling