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Trypanosoma brucei trypanothione reductase with NADP and trypanothione bound
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% PEG3350, 40MM IMIDAZOLE PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.48 50.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.7 α = 90 b = 63.7 β = 97.6 c = 169.6 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 IMAGE PLATE RIGAKU RAXIS IV MIRRORS 2009-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 2.2 19.9 95.4 0.1 15.6 3.5 109305 2 33.8
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 2.2 2.26 90.5 0.37 3.8 3.3
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 2.2 19.868 109303 5466 100 0.175 0.172 0.172 0.2263 0.2243 RANDOM 25.936
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] -0.216 0.498 -0.278 0.626
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.651 r_dihedral_angle_4_deg 18.722 r_dihedral_angle_3_deg 16.1 r_dihedral_angle_1_deg 6.868 r_scangle_it 4.659 r_scbond_it 3.064 r_angle_refined_deg 1.966 r_mcangle_it 1.842 r_mcbond_it 1.049 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.651 r_dihedral_angle_4_deg 18.722 r_dihedral_angle_3_deg 16.1 r_dihedral_angle_1_deg 6.868 r_scangle_it 4.659 r_scbond_it 3.064 r_angle_refined_deg 1.966 r_mcangle_it 1.842 r_mcbond_it 1.049 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.256 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.19 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.133 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 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_refined 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 14872 Nucleic Acid Atoms Solvent Atoms 634 Heterogen Atoms 596
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing