☰ Navigation Tabs
RNA UU template binding to AMP monomer
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8SWG PDB entry 8SWG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 10% v/v MPD, 0.040 M sodium cacodylate trihydrate, pH 7.0, 0.012 M spermine tetrahydrochloride, 0.020 M magnesium chloride hexahydrate
Crystal Properties Matthews coefficient Solvent content 2.36 47.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.838 α = 90 b = 43.838 β = 90 c = 82.845 γ = 120
Symmetry Space Group P 3 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 99 CCD MAR CCD 130 mm 2021-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.9785 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.9 50 100 0.087 0.981 28.9 14.1 7680
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.97 100 0.501 0.911 3.5 9.1
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 PDB entry 8SWG 1.9 37.99 7205 414 99.13 0.21921 0.21699 0.2281 0.261 0.2686 RANDOM 30.881
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 4.765 r_long_range_B_other 4.763 r_scangle_other 3.818 r_angle_other_deg 3.607 r_angle_refined_deg 3.021 r_scbond_it 2.778 r_scbond_other 2.777 r_chiral_restr 0.198 r_bond_other_d 0.024 r_bond_refined_d 0.023
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 4.765 r_long_range_B_other 4.763 r_scangle_other 3.818 r_angle_other_deg 3.607 r_angle_refined_deg 3.021 r_scbond_it 2.778 r_scbond_other 2.777 r_chiral_restr 0.198 r_bond_other_d 0.024 r_bond_refined_d 0.023 r_gen_planes_refined 0.017 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 594 Solvent Atoms 19 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing