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Trypanothione reductase from Trypanosoma brucei
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AOG PDB ENTRY 1AOG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 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 2.57 52.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.8 α = 90 b = 63.62 β = 97.9 c = 169.82 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 2007-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 97.9 0.12 13.8 3.7 125932 2 32.989
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 78.2 0.43 3.1 3.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 1AOG 2.1 46.913 2 125931 6297 100 0.162 0.1595 0.1597 0.2082 0.2082 RANDOM 28.63
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] 0.65 0.344 -0.419 -0.137
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.789 r_dihedral_angle_4_deg 20.899 r_dihedral_angle_3_deg 16.816 r_dihedral_angle_1_deg 6.876 r_scangle_it 5.583 r_scbond_it 3.534 r_mcangle_it 2.119 r_angle_refined_deg 1.977 r_mcbond_it 1.191 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.789 r_dihedral_angle_4_deg 20.899 r_dihedral_angle_3_deg 16.816 r_dihedral_angle_1_deg 6.876 r_scangle_it 5.583 r_scbond_it 3.534 r_mcangle_it 2.119 r_angle_refined_deg 1.977 r_mcbond_it 1.191 r_nbtor_refined 0.314 r_symmetry_hbond_refined 0.282 r_symmetry_vdw_refined 0.246 r_nbd_refined 0.216 r_xyhbond_nbd_refined 0.18 r_chiral_restr 0.14 r_metal_ion_refined 0.086 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 14791 Nucleic Acid Atoms Solvent Atoms 1249 Heterogen Atoms 223
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing