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RNA 15mer duplex binding with PZG monomer
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 0.01 M Magnesium chloride hexahydrate, 0.05 M HEPES sodium pH 7.0, 4.0 M Lithium chloride
Crystal Properties Matthews coefficient Solvent content 2.32 49.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.046 α = 90 b = 44.046 β = 90 c = 84.516 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 99 CCD MAR CCD 165 mm 2016-01-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.97 ALS 8.2.2
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 1.6 50 95.6 0.11 0.966 11.9 4.5 21914
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 1.6 1.66 71.3 0.27 0.941 2.18 1.6
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 1.6 42.258 21914 1242 95.47 0.20711 0.20565 0.2117 0.23384 0.2438 RANDOM 27.539
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 3.933 r_angle_other_deg 3.922 r_long_range_B_other 3.918 r_scangle_other 3.573 r_angle_refined_deg 2.656 r_scbond_it 2.509 r_scbond_other 2.508 r_chiral_restr 0.122 r_bond_other_d 0.074 r_bond_refined_d 0.024
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 3.933 r_angle_other_deg 3.922 r_long_range_B_other 3.918 r_scangle_other 3.573 r_angle_refined_deg 2.656 r_scbond_it 2.509 r_scbond_other 2.508 r_chiral_restr 0.122 r_bond_other_d 0.074 r_bond_refined_d 0.024 r_gen_planes_refined 0.021 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 1288 Solvent Atoms 92 Heterogen Atoms 116
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing