☰ Navigation Tabs
Cathepsin B1 from Schistosoma mansoni in complex with gallinamide analog 6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4I07
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 291 0.2 M ammonium acetate, 0.1 M sodium citrate, 30% PEG 1500, streak seeding
Crystal Properties Matthews coefficient Solvent content 2.06 40.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.062 α = 90 b = 78.87 β = 90 c = 90.139 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2018-03-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.918 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 50 99.2 0.154 0.16699999999999998 0.997 9.54 6.8 35093 23.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.64 97.1 1.801 1.952 0.47700000000000004 0.97
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.55 39.435 35093 1755 99.158 0.18 0.1782 0.2157 0.1889 19.829
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] -1.568 -0.44 2.008
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.697 r_dihedral_angle_4_deg 14.677 r_dihedral_angle_other_3_deg 14.588 r_dihedral_angle_3_deg 12.244 r_dihedral_angle_1_deg 6.56 r_lrange_it 5.018 r_lrange_other 4.985 r_scangle_it 3.914 r_scangle_other 3.912 r_scbond_it 2.534
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.697 r_dihedral_angle_4_deg 14.677 r_dihedral_angle_other_3_deg 14.588 r_dihedral_angle_3_deg 12.244 r_dihedral_angle_1_deg 6.56 r_lrange_it 5.018 r_lrange_other 4.985 r_scangle_it 3.914 r_scangle_other 3.912 r_scbond_it 2.534 r_scbond_other 2.533 r_mcangle_other 2.262 r_mcangle_it 2.258 r_angle_refined_deg 1.701 r_mcbond_it 1.543 r_mcbond_other 1.533 r_angle_other_deg 1.478 r_nbd_refined 0.207 r_symmetry_nbd_other 0.19 r_nbd_other 0.188 r_symmetry_xyhbond_nbd_refined 0.175 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.165 r_symmetry_nbd_refined 0.121 r_chiral_restr 0.089 r_symmetry_nbtor_other 0.081 r_metal_ion_refined 0.055 r_symmetry_xyhbond_nbd_other 0.019 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1998 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction MOLREP phasing