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Crystal structure of the selenocysteine synthase SelA and tRNASec complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3W1H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 35% ethylene glycol, 95mM NaNO3, 20mM Tris-HCl, 0.2M NaCl, 10mM MgCl2, 3mM 2-mercaptoethanol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.85 74.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 148.553 α = 90 b = 355.972 β = 115.41 c = 165.495 γ = 90
Symmetry Space Group C 1 2 1
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 210 mirrors 2009-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 7.5 50 98.2 0.102 0.102 16.3 3.6 9956 9777 -1 250
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 7.5 7.77 97.3 0.712 0.712 2.04 2.9 990
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 3W1H 7.5 49.94 9933 9754 475 98.2 0.194 0.194 0.2003 0.24 0.245 RANDOM 525.5
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] 185.25 68.26 -71.44
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 32.38 c_dihedral_angle_d 21.1 c_scbond_it 20.94 c_mcangle_it 15.73 c_mcbond_it 9.29 c_angle_deg 1.2 c_improper_angle_d 1.11 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17875 Nucleic Acid Atoms 9785 Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASER phasing CNS refinement HKL-2000 data reduction HKL-2000 data scaling