☰ Navigation Tabs
THE 1.94 A CRYSTAL STRUCTURE OF HUMAN CATHEPSIN G IN COMPLEX WITH 1-[(7-fluoronaphthalen-1-yl)methyl]-3-[[methoxycarbonyl(methyl)amino]methyl]indole-2-carboxylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other apo structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 7.5 293 0.2 M LiSO4 (Salt),
25 %w/v PEG3350 (Precipitant),
0.1 M HEPES 7.5 pH (Buffer),
Protein was at 17 mg/mL.
Crystal Properties Matthews coefficient Solvent content 2.26 45.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.21 α = 90 b = 44.73 β = 107.08 c = 67.27 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 IMAGE PLATE MAR scanner 345 mm plate 2006-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE BRUKER IMUS MICROFOCUS 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.94 19.51 89.9 0.08 0.091 14.83 15390
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.94 2.06 89.9 0.398 0.455
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 MOLECULAR REPLACEMENT THROUGHOUT 1.94 19.51 14611 779 90.02 0.17363 0.1706 0.1774 0.23162 0.2351 RANDOM 19.85
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] -0.4 0.44 0.49 -0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.662 r_dihedral_angle_1_deg 6.701 r_long_range_B_refined 5.68 r_long_range_B_other 5.233 r_dihedral_angle_2_deg 4.256 r_scangle_other 1.197 r_angle_refined_deg 1.181 r_mcangle_it 0.867 r_mcangle_other 0.867 r_scbond_it 0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.662 r_dihedral_angle_1_deg 6.701 r_long_range_B_refined 5.68 r_long_range_B_other 5.233 r_dihedral_angle_2_deg 4.256 r_scangle_other 1.197 r_angle_refined_deg 1.181 r_mcangle_it 0.867 r_mcangle_other 0.867 r_scbond_it 0.73 r_scbond_other 0.721 r_mcbond_it 0.496 r_mcbond_other 0.494 r_angle_other_deg 0.425 r_chiral_restr 0.061 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 1786 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction PHASER phasing