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Self-complimentary RNA 15mer binding with GMP monomers
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4NFO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 10% v/v (+/-)-2-Methyl-2,4-pentanediol, 0.040 M Sodium cacodylate trihydrate pH 7.0,
0.012 M Spermine tetrahydrochloride, 0.012 M Sodium chloride, 0.080 M Potassium chloride
Crystal Properties Matthews coefficient Solvent content 2.5 50.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.846 α = 90 b = 43.846 β = 90 c = 86.45 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 90 CCD ADSC QUANTUM 315 2016-05-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.979 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.25 50 92.7 0.044 0.045 0.956 34.4 5 51401
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 1.25 1.29 64.5 0.277 0.854 2.46 2.3
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 4NFO 1.25 37.972 45234 2387 92.65 0.20999 0.20851 0.2145 0.23859 0.2471 RANDOM 16.846
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]
RMS Deviations Key Refinement Restraint Deviation r_angle_other_deg 3.905 r_long_range_B_refined 3.771 r_long_range_B_other 3.77 r_angle_refined_deg 2.985 r_scangle_other 2.19 r_scbond_other 1.613 r_scbond_it 1.612 r_chiral_restr 0.754 r_bond_other_d 0.082 r_gen_planes_refined 0.031
RMS Deviations Key Refinement Restraint Deviation r_angle_other_deg 3.905 r_long_range_B_refined 3.771 r_long_range_B_other 3.77 r_angle_refined_deg 2.985 r_scangle_other 2.19 r_scbond_other 1.613 r_scbond_it 1.612 r_chiral_restr 0.754 r_bond_other_d 0.082 r_gen_planes_refined 0.031 r_bond_refined_d 0.03 r_gen_planes_other 0.005 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 1288 Solvent Atoms 176 Heterogen Atoms 100
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing