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Human Dihydrofolate Reductase Structural Data with Active Site Mutant Enzyme Complexes
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U72
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.9 287 100 mM potassium phosphate, pH 6.9, 60% ammonium sulfate, 3% ethanol, VAPOR DIFFUSION, HANGING DROP, temperature 287K
Crystal Properties Matthews coefficient Solvent content 2.51 51.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.416 α = 90 b = 84.416 β = 90 c = 77.934 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE RIGAKU RAXIS IV mirrors 2008-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
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 1.68 26.25 74.8 0.071 0.039 16.3 3.9 17593 2 1 32.56
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 1.68 1.77 17 0.297 0.261 1.3 1.7 590
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 1u72 2.01 26.66 1 2 12666 12666 705 97.02 0.16351 0.16055 0.1606 0.21877 0.2162 RANDOM 19.993
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] 0.01 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.318 r_dihedral_angle_3_deg 14.986 r_dihedral_angle_4_deg 13.625 r_dihedral_angle_1_deg 6.329 r_scangle_it 3.911 r_scbond_it 2.711 r_angle_refined_deg 1.969 r_mcangle_it 1.645 r_mcbond_it 1.073 r_symmetry_hbond_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.318 r_dihedral_angle_3_deg 14.986 r_dihedral_angle_4_deg 13.625 r_dihedral_angle_1_deg 6.329 r_scangle_it 3.911 r_scbond_it 2.711 r_angle_refined_deg 1.969 r_mcangle_it 1.645 r_mcbond_it 1.073 r_symmetry_hbond_refined 0.313 r_nbtor_refined 0.304 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.213 r_symmetry_vdw_refined 0.19 r_chiral_restr 0.152 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1497 Nucleic Acid Atoms Solvent Atoms 276 Heterogen Atoms 98
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling