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Crystal structure of the thymidylate synthase k48q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FFL PDB ENTRY: 1FFL, 1FWM experimental model PDB 1FWM PDB ENTRY: 1FFL, 1FWM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 20 mM potassium phosphate buffer, 4 mM DTT and increments in ammonium sulfate from 2.05 to 2.6 M, pH 7.5 to 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.6 52.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.37 α = 90 b = 127.37 β = 90 c = 67.84 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 DIFFRACTOMETER ENRAF-NONIUS FAST 1999-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.6 35.52 100 0.092 12.3 4.8 19482 19482 44.35
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.74 100 0.4 3.8 3.9 2783
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-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY: 1FFL, 1FWM 2.7 25.55 19482 16931 837 97.4 0.193 0.234 RANDOM 31.8
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] -2.38 -2.38 4.75
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.7 c_angle_deg 1.4 c_improper_angle_d 0.74 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4300 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 52
Software Software Software Name Purpose CNS refinement REFMAC refinement PDB_EXTRACT data extraction MADNESS data collection PROCOR data reduction Agrovata data scaling ROTAVATA data scaling TRUNCATE data scaling X-PLOR phasing SCALA data scaling