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Crystal structure of pteridine reductase 1 (PTR1) from Trypanosoma brucei in ternary complex with cofactor and inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 RESERVOIR CONTAINED 1.7-2.7 M SODIUM ACETATE, 20-50 MM SODIUM CITRATE PH 4.5-5.0
Crystal Properties Matthews coefficient Solvent content 2.02 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.134 α = 90 b = 89.75 β = 115.48 c = 82.375 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 RIGAKU SATURN 944 HG 2013-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 1.95 53.65 99.5 0.06 11.4 3.6 70625
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 1.95 1.99 97.5 0.37 2.6 3.1
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 OTHER THROUGHOUT NONE 1.95 53.71 66719 3597 98.98 0.20307 0.20001 0.2066 0.26053 0.2627 RANDOM 25.894
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] -1.84 -0.95 3.05 -0.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.6 r_dihedral_angle_4_deg 17.923 r_dihedral_angle_3_deg 15.236 r_dihedral_angle_1_deg 6.145 r_mcangle_it 2.956 r_scbond_it 2.25 r_mcbond_it 1.952 r_mcbond_other 1.952 r_angle_refined_deg 1.825 r_angle_other_deg 0.979
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.6 r_dihedral_angle_4_deg 17.923 r_dihedral_angle_3_deg 15.236 r_dihedral_angle_1_deg 6.145 r_mcangle_it 2.956 r_scbond_it 2.25 r_mcbond_it 1.952 r_mcbond_other 1.952 r_angle_refined_deg 1.825 r_angle_other_deg 0.979 r_chiral_restr 0.095 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it 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 7451 Nucleic Acid Atoms Solvent Atoms 521 Heterogen Atoms 296
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling