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RNA hairpin structure containing 2-MeImpG analogue bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4FNJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 617-726-5102
Crystal Properties Matthews coefficient Solvent content 3.54 65.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.747 α = 90 b = 44.747 β = 90 c = 154.198 γ = 90
Symmetry Space Group P 43 21 2
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 ADSC QUANTUM 315 2016-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1 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 2.7 50 97.3 0.1 0.098 0.984 18.24 9.1 4657
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.8 94.4 0.777 0.432 0.931 1.65 6.4
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 4FNJ 2.7 42.97 4446 211 97.26 0.2205 0.21796 0.2228 0.27661 0.2909 RANDOM 86.792
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] 0.05 0.05 -0.1
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_other 13.107 r_long_range_B_refined 13.103 r_scangle_other 10.029 r_scbond_it 7.524 r_scbond_other 7.521 r_angle_other_deg 2.469 r_angle_refined_deg 1.781 r_chiral_restr 0.105 r_bond_refined_d 0.012 r_gen_planes_refined 0.011
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_other 13.107 r_long_range_B_refined 13.103 r_scangle_other 10.029 r_scbond_it 7.524 r_scbond_other 7.521 r_angle_other_deg 2.469 r_angle_refined_deg 1.781 r_chiral_restr 0.105 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d 0.007 r_gen_planes_other 0.002 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 705 Solvent Atoms 10 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing