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Correlations of Human Dihydrofolate Reductase with Structural Data for Human 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, 30% ammonium sulfate, 3% ethanol, VAPOR DIFFUSION, HANGING DROP, temperature 287K
Crystal Properties Matthews coefficient Solvent content 2.5 50.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.294 α = 90 b = 84.294 β = 90 c = 78.117 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 CCD MARMOSAIC 325 mm CCD mirrors 2008-02-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 1.000 SSRL BL9-1
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 1.2 53.3 79.4 0.039 0.046 16.7 3 50420 2 1 30.5
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 1.45 1.53 98.9 0.168 0.562 0.9 1.4 1654
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 (All) 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 1.45 26.67 1 1 34546 34542 1817 99.13 0.1898 0.1917 0.18978 0.1878 0.22762 0.2249 RANDOM 19.698
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
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.298 r_dihedral_angle_3_deg 13.631 r_dihedral_angle_4_deg 12.798 r_dihedral_angle_1_deg 5.898 r_scangle_it 2.977 r_scbond_it 1.949 r_angle_refined_deg 1.802 r_mcangle_it 1.365 r_mcbond_it 0.823 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.298 r_dihedral_angle_3_deg 13.631 r_dihedral_angle_4_deg 12.798 r_dihedral_angle_1_deg 5.898 r_scangle_it 2.977 r_scbond_it 1.949 r_angle_refined_deg 1.802 r_mcangle_it 1.365 r_mcbond_it 0.823 r_nbtor_refined 0.31 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.186 r_symmetry_vdw_refined 0.166 r_symmetry_hbond_refined 0.145 r_chiral_restr 0.125 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1502 Nucleic Acid Atoms Solvent Atoms 372 Heterogen Atoms 83
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction SCALA data scaling