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Wild-type Plasmodium falciparum dihydrofolate reductase-thymidylate synthase (PfDHFR-TS) complexed with methotrexate (MTX), NADPH and dUMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QGT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 297 PEG3350, litium chloride, sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.5 55.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.678 α = 90 b = 154.403 β = 90 c = 164.165 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 ADSC QUANTUM 315r 2013-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 1 NSRRC BL13B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.25 50 96.9 0.994 12.5 6.6 66860
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.33 0.926
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 FREE R-VALUE 3QGT 2.252 27.577 64950 3247 93.932 0.185 0.1822 0.1886 0.2329 0.2335 42.303
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] -0.432 0.085 0.347
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.633 r_dihedral_angle_3_deg 17.411 r_dihedral_angle_4_deg 16.434 r_lrange_other 9.392 r_lrange_it 9.387 r_dihedral_angle_1_deg 7.755 r_mcangle_it 6.476 r_mcangle_other 6.475 r_scangle_it 6.45 r_scangle_other 6.449
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.633 r_dihedral_angle_3_deg 17.411 r_dihedral_angle_4_deg 16.434 r_lrange_other 9.392 r_lrange_it 9.387 r_dihedral_angle_1_deg 7.755 r_mcangle_it 6.476 r_mcangle_other 6.475 r_scangle_it 6.45 r_scangle_other 6.449 r_mcbond_it 4.103 r_mcbond_other 4.103 r_scbond_it 4.093 r_scbond_other 4.092 r_dihedral_angle_other_2_deg 2.489 r_angle_refined_deg 1.613 r_angle_other_deg 1.267 r_nbd_other 0.242 r_symmetry_nbd_refined 0.239 r_nbd_refined 0.208 r_symmetry_nbd_other 0.192 r_xyhbond_nbd_refined 0.18 r_nbtor_refined 0.176 r_symmetry_xyhbond_nbd_refined 0.171 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.077 r_symmetry_xyhbond_nbd_other 0.021 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9075 Nucleic Acid Atoms Solvent Atoms 546 Heterogen Atoms 247
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing