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16mer self-complementary duplex RNA with dG:s(2)C pair sequence 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8FER
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.1 M MES pH 6.5, 0.06 M Manganese (II) chloride, 15.00 % w/v Polyethylene glycol 20,000
Crystal Properties Matthews coefficient Solvent content 2.09 41.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.502 α = 90 b = 42.502 β = 90 c = 122.713 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 99 PIXEL DECTRIS EIGER2 S 9M 2025-04-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.00003 ALS 8.2.1
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 1.919 50 99.3 0.044 0.049 0.021 1 32.8 5 18877
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 1.919 1.95 99.4 0.57 0.638 0.284 0.859 2.8 4.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.919 36.808 17519 779 92.361 0.19 0.1873 0.2566 0.2848 14.929
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] -0.001 -0.001 0.003
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 3.735 r_lrange_other 3.493 r_angle_refined_deg 2.058 r_scangle_it 2.046 r_scangle_other 2.046 r_scbond_it 1.351 r_scbond_other 1.351 r_angle_other_deg 0.565 r_nbtor_refined 0.244 r_xyhbond_nbd_refined 0.228
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 3.735 r_lrange_other 3.493 r_angle_refined_deg 2.058 r_scangle_it 2.046 r_scangle_other 2.046 r_scbond_it 1.351 r_scbond_other 1.351 r_angle_other_deg 0.565 r_nbtor_refined 0.244 r_xyhbond_nbd_refined 0.228 r_symmetry_nbd_other 0.201 r_dihedral_angle_other_2_deg 0.177 r_symmetry_xyhbond_nbd_refined 0.171 r_nbd_other 0.167 r_symmetry_xyhbond_nbd_other 0.122 r_symmetry_nbd_refined 0.109 r_nbd_refined 0.106 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.074 r_gen_planes_refined 0.015 r_bond_refined_d 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 2010 Solvent Atoms 269 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing