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Structure of MLE RNA ADP AlF4 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KX2 PDB ENTRY 3KX2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 20 % PEG 3350 0.2 M MAGNESIUM ACETATE
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.373 α = 90 b = 154.373 β = 90 c = 198.194 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 100 PIXEL DECTRIS PILATUS 2013-08-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA SLS X06DA
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 2.08 50 99.9 0.15 15.1 13.25 143331 1.7
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 2.08 2.2 99.5 1.5 1.7 13.17
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 3KX2 2.08 48.82 136162 7169 99.91 0.19196 0.19044 0.1984 0.22071 0.2299 RANDOM 44.805
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] -0.34 -0.34 0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32 r_dihedral_angle_4_deg 18.535 r_dihedral_angle_3_deg 14.434 r_dihedral_angle_1_deg 6.248 r_mcangle_it 4.221 r_scbond_it 3.62 r_mcbond_it 2.748 r_mcbond_other 2.747 r_angle_refined_deg 1.567 r_angle_other_deg 1.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32 r_dihedral_angle_4_deg 18.535 r_dihedral_angle_3_deg 14.434 r_dihedral_angle_1_deg 6.248 r_mcangle_it 4.221 r_scbond_it 3.62 r_mcbond_it 2.748 r_mcbond_other 2.747 r_angle_refined_deg 1.567 r_angle_other_deg 1.315 r_chiral_restr 0.089 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.005 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 15855 Nucleic Acid Atoms 404 Solvent Atoms 599 Heterogen Atoms 79
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing