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Crystal structure of bacterial selenocysteine-specific elongation factor EF-Sec
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.1 293 100 mM sodium acetate-HCl buffer, 1.7 M (NH4)2SO4, 20 mM L-cysteine, 3 mM GMPPNP, 10 mM Mg2SO4
Crystal Properties Matthews coefficient Solvent content 5 75.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.24 α = 90 b = 114.24 β = 90 c = 204.632 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 CCD ADSC QUANTUM 315 mirrors 2007-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL24XU 0.97895 SPring-8 BL24XU
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 3.19 50 99.8 0.158 16.87 15.48 42987 -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 3.19 3.38 99.4 0.02598 1.26 15.46
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 SAD FREE R-VALUE 3.191 40.39 1.27 42954 2179 99.79 0.2091 0.2065 0.2219 0.2608 0.27 Random selection
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.899 f_angle_d 1.39 f_chiral_restr 0.055 f_bond_d 0.01 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4663 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 55
Software Software Software Name Purpose PHENIX refinement SHARP phasing XDS data reduction XDS data scaling