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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 3.89 68.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 164.074 α = 90 b = 209.85 β = 90 c = 127.318 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 3.6 50 21517
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 3.6 50 1495 20022 1562 77.5 0.202 0.2159 0.266 0.2788 135.038
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] -38.003 49.486 -11.482
RMS Deviations Key Refinement Restraint Deviation c_mcangle_it 2.525 c_scangle_it 2.429 c_scbond_it 1.432 c_mcbond_it 1.397 c_angle_deg 1.209 c_bond_d 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6678 Nucleic Acid Atoms 2951 Solvent Atoms 122 Heterogen Atoms 24
Software Software Software Name Purpose CNS refinement PDB_EXTRACT data extraction