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Trypanosoma brucei trypanothione reductase in complex with 3,4- dihydroquinazoline inhibitor (DDD00073357)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WOI PDB ENTRY 2WOI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 15MG/ML PROTEIN IN 25MM HEPES PH 7.5, 50MM NABR EQUILIBRATED AGAINST 24% MPD, 10% PEG 3350, 40MM IMIDAZOLE PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.47 50.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.25 α = 90 b = 63.43 β = 98.58 c = 169.37 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC CCD MIRRORS 2008-02-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.1 46.9 90.2 0.11 14.5 3.2 117358 2 26.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.15 79.6 0.38 3.7 3
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 PDB ENTRY 2WOI 2.1 46.881 117357 5868 100 0.169 0.1652 0.1652 0.232 0.2313 RANDOM 21.049
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] -0.014 0.69 -0.597 0.817
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.802 r_dihedral_angle_4_deg 17.375 r_dihedral_angle_3_deg 16.665 r_dihedral_angle_1_deg 6.925 r_scangle_it 4.705 r_scbond_it 3.105 r_angle_refined_deg 1.964 r_mcangle_it 1.735 r_mcbond_it 1.041 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.802 r_dihedral_angle_4_deg 17.375 r_dihedral_angle_3_deg 16.665 r_dihedral_angle_1_deg 6.925 r_scangle_it 4.705 r_scbond_it 3.105 r_angle_refined_deg 1.964 r_mcangle_it 1.735 r_mcbond_it 1.041 r_nbtor_refined 0.313 r_symmetry_vdw_refined 0.255 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.215 r_metal_ion_refined 0.165 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.138 r_bond_refined_d 0.024 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14865 Nucleic Acid Atoms Solvent Atoms 1427 Heterogen Atoms 363
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing