☰ Navigation Tabs
Crystal structure of cruzain with gallinamide analog from 2-biaryl series
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KKU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.3 296 3.2 M Sodium Chloride; 0.1 M Sodium Citrate pH 5.3; 0.01 M Sarcosine
Crystal Properties Matthews coefficient Solvent content 2.33 47.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.5 α = 90 b = 99.5 β = 90 c = 85.37 γ = 90
Symmetry Space Group I 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 110 PIXEL DECTRIS PILATUS3 6M Mirrors 2021-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1
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 2.14 70.36 100 0.068 0.07 1 21.31 25.246 12135 79.502
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 2.14 2.2 100 5.573 5.68 0.481 0.89 26.749
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 3kku 2.14 70.36 11556 568 99.94 0.2013 0.1971 0.2039 0.2894 0.2966 RANDOM 87.414
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] 3.73 3.73 -7.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.748 r_dihedral_angle_3_deg 14.611 r_dihedral_angle_4_deg 11.719 r_dihedral_angle_1_deg 6.93 r_angle_refined_deg 1.898 r_angle_other_deg 1.02 r_chiral_restr 0.087 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.748 r_dihedral_angle_3_deg 14.611 r_dihedral_angle_4_deg 11.719 r_dihedral_angle_1_deg 6.93 r_angle_refined_deg 1.898 r_angle_other_deg 1.02 r_chiral_restr 0.087 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1589 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction MOLREP phasing