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Crystal Structure Analysis of the duplex containing the S2T(2',4'-BNA/LNA)G mismatch pairs
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D27
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 7 293 2-Methyl-2,4-pentanediol
Crystal Properties Matthews coefficient Solvent content 2.21 44.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.49 α = 90 b = 41.13 β = 90 c = 65.42 γ = 90
Symmetry Space Group P 21 21 21
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 RAYONIX MX300HE 2017-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPring-8 BL44XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.96 32.71 98.7 0.062 0.067 0.026 0.998 12.1 6.6 5231
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.96 2.01 99.7 0.808 0.875 0.331 0.826 6.6
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 1d27 1.96 32.71 4680 491 97.42 0.2576 0.2531 0.2559 0.2968 0.3088 RANDOM 50.518
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] -2.03 4.01 -1.98
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 2.515 r_angle_other_deg 1.911 r_chiral_restr 0.137 r_gen_planes_refined 0.015 r_bond_refined_d 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 492 Solvent Atoms 15 Heterogen Atoms
Software Software Software Name Purpose Aimless data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction