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Complex of RNA r(GCAGCAGC) with antisense PNA p(CTGCTGC)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NJ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 292 40mMMgCL2, HEPES, 1.6M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 4.8 74.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.171 α = 90 b = 35.171 β = 90 c = 68.918 γ = 120
Symmetry Space Group P 31 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 100 CCD MARMOSAIC 225 mm CCD 2012-11-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.855 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 1.15 30.46 98.2 0.064 18.73 9 17805
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.15 1.22 96.4 0.74 2.99 9.8
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 3NJ6 1.15 30.46 16914 891 98.08 0.14121 0.13926 0.1797 0.17686 0.198 RANDOM 13.795
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] -0.39 -0.19 -0.39 1.26
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 25.461 r_sphericity_bonded 11.825 r_rigid_bond_restr 6.456 r_long_range_B_refined 3.791 r_long_range_B_other 3.324 r_scangle_other 3.084 r_angle_refined_deg 2.825 r_scbond_it 2.645 r_scbond_other 2.641 r_angle_other_deg 1.793
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 25.461 r_sphericity_bonded 11.825 r_rigid_bond_restr 6.456 r_long_range_B_refined 3.791 r_long_range_B_other 3.324 r_scangle_other 3.084 r_angle_refined_deg 2.825 r_scbond_it 2.645 r_scbond_other 2.641 r_angle_other_deg 1.793 r_chiral_restr 0.136 r_gen_planes_refined 0.028 r_bond_refined_d 0.024 r_gen_planes_other 0.011 r_bond_other_d 0.004 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 170 Solvent Atoms 105 Heterogen Atoms 158
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing