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Structure of Pteridine Reductase 1 (PTR1) from Trypanosoma brucei in ternary complex with cofactor (NADP+) and inhibitor (Compound AX5)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 2-3M sodium acetate, 10-100mM sodium citrate, pH 4.5, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.07 40.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.723 α = 90 b = 91.162 β = 115.72 c = 82.832 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 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 SRS PX14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.7 74.625 85.8 0.055 0.055 8.4 5.6 94013
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.79 90.6 0.147 0.147 4.3 5.5 14447
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.7 74.54 93474 4704 85.5 0.134 0.131 0.1418 0.178 RANDOM 9.163
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] -0.6 -0.34 0.99 -0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.755 r_dihedral_angle_4_deg 16.948 r_dihedral_angle_3_deg 13.412 r_dihedral_angle_1_deg 5.939 r_scangle_it 4.046 r_scbond_it 3.085 r_mcangle_it 1.964 r_angle_refined_deg 1.731 r_mcbond_it 1.646 r_angle_other_deg 1.064
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.755 r_dihedral_angle_4_deg 16.948 r_dihedral_angle_3_deg 13.412 r_dihedral_angle_1_deg 5.939 r_scangle_it 4.046 r_scbond_it 3.085 r_mcangle_it 1.964 r_angle_refined_deg 1.731 r_mcbond_it 1.646 r_angle_other_deg 1.064 r_mcbond_other 0.401 r_symmetry_vdw_other 0.287 r_xyhbond_nbd_refined 0.255 r_nbd_refined 0.224 r_symmetry_hbond_refined 0.216 r_nbd_other 0.203 r_nbtor_refined 0.171 r_symmetry_vdw_refined 0.122 r_chiral_restr 0.101 r_nbtor_other 0.087 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7513 Nucleic Acid Atoms Solvent Atoms 1361 Heterogen Atoms 298
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction