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Quadruple mutant (N51I+C59R+S108N+I164L) plasmodium falciparum dihydrofolate reductase-thymidylate synthase (PfDHFR-TS) complexed with compound 46 and NADPH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DP3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 4.6 298 0.1 mM sodium acetate, pH 4.6, 0.2 M ammonium acetate, 25% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.77 55.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.703 α = 90 b = 155.878 β = 90 c = 164.8 γ = 90
Symmetry Space Group P 21 21 21
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 Nonius Kappa CCD 2003-10-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591 1.5418
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 2.64 10 90.6 0.103 10.8 5.1 45387
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 2.64 2.69 0.445
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 4DP3 2.644 10 39019 1915 87.813 0.192 0.1876 0.1945 0.2714 0.2759 50.938
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] 3.883 -0.891 -2.992
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.816 r_dihedral_angle_4_deg 18.435 r_dihedral_angle_3_deg 18.414 r_lrange_other 9.778 r_lrange_it 9.775 r_dihedral_angle_1_deg 8.478 r_mcangle_it 7.184 r_mcangle_other 7.183 r_scangle_it 6.849 r_scangle_other 6.848
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.816 r_dihedral_angle_4_deg 18.435 r_dihedral_angle_3_deg 18.414 r_lrange_other 9.778 r_lrange_it 9.775 r_dihedral_angle_1_deg 8.478 r_mcangle_it 7.184 r_mcangle_other 7.183 r_scangle_it 6.849 r_scangle_other 6.848 r_mcbond_it 4.595 r_mcbond_other 4.594 r_scbond_it 4.391 r_scbond_other 4.387 r_angle_refined_deg 1.718 r_angle_other_deg 1.215 r_chiral_restr_other 0.952 r_nbd_other 0.269 r_symmetry_nbd_refined 0.246 r_nbd_refined 0.212 r_symmetry_nbd_other 0.187 r_xyhbond_nbd_refined 0.179 r_nbtor_refined 0.176 r_symmetry_xyhbond_nbd_refined 0.113 r_chiral_restr 0.104 r_symmetry_xyhbond_nbd_other 0.082 r_symmetry_nbtor_other 0.078 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8747 Nucleic Acid Atoms Solvent Atoms 59 Heterogen Atoms 150
Software Software Software Name Purpose REFMAC refinement DENZO data reduction HKL-2000 data scaling Coot model building