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Crystal structure of human thymidylate synthase mutant Y202C
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3N5G pdb entry 3N5G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.3 300 35% saturated Ammonium Sulfate + 20mM BME + 0.1M TRIS, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.99 58.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.23 α = 90 b = 96.23 β = 90 c = 83.77 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 100 CCD ADSC QUANTUM 315r 2009-12-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.936 ESRF ID29
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 2.26 48.12 97.6 0.067 12 3.8 43550 39688 2 47.3
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 2.26 2.38 98.6 0.378 3.7 3.8 5882
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 pdb entry 3N5G 2.26 48.12 39688 37663 1972 97.55 0.17343 0.1715 0.1747 0.21006 0.2113 RANDOM 54.166
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
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.871 r_dihedral_angle_3_deg 16.395 r_dihedral_angle_4_deg 14.564 r_long_range_B_refined 8.068 r_dihedral_angle_1_deg 6.177 r_mcangle_it 3.319 r_scbond_it 2.696 r_mcbond_it 2.029 r_angle_refined_deg 1.435 r_chiral_restr 0.099
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.871 r_dihedral_angle_3_deg 16.395 r_dihedral_angle_4_deg 14.564 r_long_range_B_refined 8.068 r_dihedral_angle_1_deg 6.177 r_mcangle_it 3.319 r_scbond_it 2.696 r_mcbond_it 2.029 r_angle_refined_deg 1.435 r_chiral_restr 0.099 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4240 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 49
Software Software Software Name Purpose MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling