☰ Navigation Tabs
Structure of L-threoninol nucleic acid - RNA complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 28% PEG 400, 0.1M HEPES (pH 7.5), 0.2M Calcium chloride
Crystal Properties Matthews coefficient Solvent content 2.21 44.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.996 α = 90 b = 33.344 β = 115.64 c = 54.055 γ = 90
Symmetry Space Group I 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 95 PIXEL DECTRIS EIGER X 16M 2019-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.90000 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 1.75 28.5 98.7 0.06 0.079 0.051 0.989 13.9 4.3 8609
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 1.75 1.78 99.1 0.307 0.397 0.25 0.944
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 1.75 20 8218 383 98.4 0.27 0.269 0.2629 0.288 0.3056 RANDOM 46.734
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] 0.74 4.67 -3.81 -0.97
RMS Deviations Key Refinement Restraint Deviation r_angle_other_deg 14.46 r_long_range_B_refined 4.938 r_long_range_B_other 4.937 r_scangle_other 4.081 r_scbond_it 3.335 r_scbond_other 3.293 r_angle_refined_deg 1.655 r_rigid_bond_restr 1.244 r_chiral_restr 0.081 r_bond_refined_d 0.007
RMS Deviations Key Refinement Restraint Deviation r_angle_other_deg 14.46 r_long_range_B_refined 4.938 r_long_range_B_other 4.937 r_scangle_other 4.081 r_scbond_it 3.335 r_scbond_other 3.293 r_angle_refined_deg 1.655 r_rigid_bond_restr 1.244 r_chiral_restr 0.081 r_bond_refined_d 0.007 r_bond_other_d 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.001 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 294 Solvent Atoms 21 Heterogen Atoms 356
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling AutoSol phasing