☰ Navigation Tabs
Structure of dsRNA 16mer containing 4'-C-methyluridine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 10% MPD, 40 mM Sodium cacodylate trihydrate pH 6.0 12 mM Spermine, 80 mM KCl
Crystal Properties Matthews coefficient Solvent content 2.22 43.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.081 α = 90 b = 42.928 β = 120.019 c = 49.294 γ = 90
Symmetry Space Group C 1 2 1
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 EIGER2 XE 16M 2024-07-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-1 0.92002 SSRL BL12-1
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 2 33 98.5 0.075 0.09 0.049 0.994 5.3 3.3 9056
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 2 2.05 98.8 0.622 0.741 0.398 0.691 3.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2 32.143 9055 492 98.381 0.226 0.2248 0.2335 0.2499 0.2449 53.496
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] 1.303 -0.06 0.108 -0.805
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 5.756 r_lrange_other 5.755 r_scangle_it 4.982 r_scangle_other 4.981 r_scbond_it 3.461 r_scbond_other 3.459 r_angle_refined_deg 1.691 r_angle_other_deg 0.49 r_dihedral_angle_other_2_deg 0.404 r_nbtor_refined 0.261
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 5.756 r_lrange_other 5.755 r_scangle_it 4.982 r_scangle_other 4.981 r_scbond_it 3.461 r_scbond_other 3.459 r_angle_refined_deg 1.691 r_angle_other_deg 0.49 r_dihedral_angle_other_2_deg 0.404 r_nbtor_refined 0.261 r_symmetry_nbd_refined 0.215 r_symmetry_nbd_other 0.198 r_nbd_other 0.197 r_nbd_refined 0.147 r_symmetry_xyhbond_nbd_refined 0.143 r_xyhbond_nbd_refined 0.117 r_symmetry_nbtor_other 0.098 r_chiral_restr 0.072 r_gen_planes_refined 0.029 r_ncsr_local_group_1 0.014 r_ncsr_local_group_2 0.014 r_ncsr_local_group_3 0.014 r_bond_refined_d 0.012 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 1017 Solvent Atoms 4 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction PDB_EXTRACT data extraction AutoSol phasing