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The complex structure of aTrm5 and tRNALeu
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YX1 PDB ENTRY 2yx1 and 1wz2 experimental model PDB 1WZ2 PDB ENTRY 2yx1 and 1wz2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 sitting drop, vapor diffusion 7.2 293 175mM Mg(HCOO)2, 13% PEG 3350, 25mM KCl, 35mM Na-HEPES, pH 7.2, sitting drop, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.48 50.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.399 α = 90 b = 138.39 β = 90 c = 61.654 γ = 90
Symmetry Space Group P 21 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 100 CCD ADSC QUANTUM 315 2008-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1 SPring-8 BL41XU
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 2.65 50 20282 70.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 2yx1 and 1wz2 2.65 46.03 20064 1022 99.5 0.215 0.215 0.2195 0.289 0.2188 RANDOM 70.8
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] 16.99 -14.78 -2.21
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.5 c_scangle_it 10.95 c_scbond_it 8.48 c_mcangle_it 8.06 c_mcbond_it 5.87 c_angle_deg 1.5 c_improper_angle_d 1.41 c_bond_d 0.009 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.5 c_scangle_it 10.95 c_scbond_it 8.48 c_mcangle_it 8.06 c_mcbond_it 5.87 c_angle_deg 1.5 c_improper_angle_d 1.41 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2724 Nucleic Acid Atoms 1793 Solvent Atoms 39 Heterogen Atoms 32
Software Software Software Name Purpose CNS refinement ADSC data collection HKL-2000 data reduction SCALEPACK data scaling PHASER phasing