☰ Navigation Tabs
Structure of serinol nucleic acid - RNA complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 25% PEG 400, 0.1M HEPES (pH6.5), 75mM Calcium chloride
Crystal Properties Matthews coefficient Solvent content 2.02 39.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.363 α = 90 b = 46.918 β = 114.54 c = 47.54 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 PIXEL DECTRIS EIGER X 16M 2019-10-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.919744 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 1.7 46.92 99.8 0.052 0.062 0.032 0.998 14.3 3.5 17920
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 1.7 1.73 98.5 0.97 1.144 0.6 0.734 2
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.7 20 16997 894 99.82 0.234 0.232 0.2326 0.271 0.2706 RANDOM 58.738
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] -1.96 3.56 -6.54 3.71
RMS Deviations Key Refinement Restraint Deviation r_angle_other_deg 19.919 r_long_range_B_refined 8.363 r_long_range_B_other 8.298 r_scangle_other 6.412 r_scbond_it 4.992 r_scbond_other 4.907 r_rigid_bond_restr 3.929 r_angle_refined_deg 1.568 r_chiral_restr 0.071 r_bond_refined_d 0.01
RMS Deviations Key Refinement Restraint Deviation r_angle_other_deg 19.919 r_long_range_B_refined 8.363 r_long_range_B_other 8.298 r_scangle_other 6.412 r_scbond_it 4.992 r_scbond_other 4.907 r_rigid_bond_restr 3.929 r_angle_refined_deg 1.568 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.007 r_gen_planes_other 0.007 r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scangle_it r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 648 Solvent Atoms 66 Heterogen Atoms 681
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling AutoSol phasing