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Crystallographic snapshots of eukaryotic dimethylallyltransferase acting on tRNA: Insight into tRNA recognition and reaction mechanism
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 278 Pentaerythritol propoxylate 426, pH 6.5, vapor diffusion, temperature 278K, VAPOR DIFFUSION
Crystal Properties Matthews coefficient Solvent content 3.83 67.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 162.463 α = 90 b = 211.596 β = 90 c = 125.518 γ = 90
Symmetry Space Group C 2 2 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 MARMOSAIC 225 mm CCD 2007-11-12 M SINGLE WAVELENGTH 2 1 CCD MARMOSAIC 300 mm CCD 2007-11-12
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.9785 APS 21-ID-F 2 SYNCHROTRON APS BEAMLINE 21-ID-G 0.9785 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.95 50 40472
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION 2.95 50 3268 37204 3023 81.2 0.197 0.2103 0.236 0.2475 91.406
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] -28.027 42.396 -14.369
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.689 c_mcangle_it 2.279 c_scbond_it 1.619 c_mcbond_it 1.295 c_angle_deg 1.211 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6678 Nucleic Acid Atoms 2944 Solvent Atoms 282 Heterogen Atoms 30
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction