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Crystal structures of pseudouridinilated stop codons with ASLs
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6.5 277.15 12%MPD 0.1M MES-KOH pH6.5 50mM KCL 10mM NH4-CL 15mM Mg2CL, EVAPORATION, temperature 277.15K
Crystal Properties Matthews coefficient Solvent content 4.6 73.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 401 α = 90 b = 401 β = 90 c = 176 γ = 90
Symmetry Space Group P 41 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 77 CCD ADSC QUANTUM 315r 2012-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 1.000 Diamond I04
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 3.1 45.8 99.2 241499 241499 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.1 3.3 98.7 0.632 1.8 2.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3.162 29.88 241499 219586 11558 95.44 0.20002 0.19744 0.24905 0.2362 RANDOM 85.521
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] 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.47 r_dihedral_angle_3_deg 23.62 r_dihedral_angle_4_deg 18.259 r_mcangle_it 10.453 r_dihedral_angle_1_deg 9.011 r_mcbond_it 6.539 r_mcbond_other 6.539 r_scbond_it 5.988 r_angle_refined_deg 1.698 r_angle_other_deg 1.276
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.47 r_dihedral_angle_3_deg 23.62 r_dihedral_angle_4_deg 18.259 r_mcangle_it 10.453 r_dihedral_angle_1_deg 9.011 r_mcbond_it 6.539 r_mcbond_other 6.539 r_scbond_it 5.988 r_angle_refined_deg 1.698 r_angle_other_deg 1.276 r_chiral_restr 0.104 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19120 Nucleic Acid Atoms 32785 Solvent Atoms Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction XDS data scaling MOLREP phasing