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Crystal structure of E coli Hfq bound to two RNAs
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HK9 PDB ENTRY 1HK9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 283 100 mM NaCl, 100 mM Cacodylate, 12% PEG 8000, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 283K
Crystal Properties Matthews coefficient Solvent content 1.84 33.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.59 α = 90 b = 38.28 β = 90 c = 84.52 γ = 90
Symmetry Space Group I 1 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 2011-03-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9793 SSRF BL17U
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 1.8 49.244 98.6 0.057 18.5 6.5 17910 17910 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 99 0.268 0.268 2.7 6.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1HK9 1.8 30.31 18193 16985 916 98.33 0.18572 0.18384 0.1934 0.22061 0.2346 RANDOM 22.221
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] -0.94 -1.15 1.88 -0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.904 r_dihedral_angle_4_deg 20.217 r_dihedral_angle_3_deg 15.624 r_dihedral_angle_1_deg 6.044 r_scangle_it 2.612 r_scbond_it 1.62 r_angle_refined_deg 1.431 r_mcangle_it 1.135 r_mcbond_it 0.602 r_chiral_restr 0.095
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.904 r_dihedral_angle_4_deg 20.217 r_dihedral_angle_3_deg 15.624 r_dihedral_angle_1_deg 6.044 r_scangle_it 2.612 r_scbond_it 1.62 r_angle_refined_deg 1.431 r_mcangle_it 1.135 r_mcbond_it 0.602 r_chiral_restr 0.095 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1440 Nucleic Acid Atoms 191 Solvent Atoms 162 Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection