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Crystal structure analysis of cruzain bound to vinyl sulfone derived inhibitor (WRR483)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OZ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 291.15 1.26M Ammonium sulfate, 0.2M Lithium sulfate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291.15K
Crystal Properties Matthews coefficient Solvent content 2.45 49.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 134.35 α = 90 b = 38.15 β = 114.36 c = 95.16 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 103 CCD ADSC QUANTUM 315r mirrors 2007-01-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.98 SSRL BL9-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.5 63.94 99.2 0.057 19.3 5.3 70666 70666
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.5 1.58 99.7 0.182 5.4
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 (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 2OZ2 1.5 45.31 67086 67086 3580 98.81 0.12368 0.12186 0.1316 0.15817 0.1643 RANDOM 8.775
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] -0.81 -0.33 1.18 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.094 r_dihedral_angle_4_deg 23.192 r_dihedral_angle_3_deg 9.711 r_dihedral_angle_1_deg 6.106 r_scangle_it 4.8 r_scbond_it 3.647 r_mcangle_it 2.242 r_angle_refined_deg 1.755 r_mcbond_it 1.626 r_rigid_bond_restr 1.594
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.094 r_dihedral_angle_4_deg 23.192 r_dihedral_angle_3_deg 9.711 r_dihedral_angle_1_deg 6.106 r_scangle_it 4.8 r_scbond_it 3.647 r_mcangle_it 2.242 r_angle_refined_deg 1.755 r_mcbond_it 1.626 r_rigid_bond_restr 1.594 r_angle_other_deg 0.984 r_mcbond_other 0.65 r_chiral_restr 0.153 r_gen_planes_refined 0.019 r_bond_refined_d 0.017 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3186 Nucleic Acid Atoms Solvent Atoms 485 Heterogen Atoms 185
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling