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Crystal structure of HPF bound to the 70S ribosome.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WDG PDB ENTRY 2WDG and 2WDI experimental model PDB 2WDI PDB ENTRY 2WDG and 2WDI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.6 292 0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
Crystal Properties Matthews coefficient Solvent content 3.31 57.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 208.97 α = 90 b = 447.24 β = 90 c = 617.67 γ = 90
Symmetry Space Group P 21 21 21
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 ADSC QUANTUM 315r 2011-02-06 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1000 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 3.1 49.9852 96.8 0.228 6.01 5.06 1002309 -3
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 3.1 3.18 92.5 0.012 1.01
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 2WDG and 2WDI 3.1 49.979 1.33 993138 49827 95.99 0.2178 0.2157 0.2133 0.2583 0.2555
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] -8.3427 -2.9373 11.28
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 19.806 f_angle_d 1.481 f_chiral_restr 0.084 f_bond_d 0.014 f_plane_restr 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18151 Nucleic Acid Atoms 32270 Solvent Atoms 294 Heterogen Atoms 146
Software Software Software Name Purpose XSCALE data scaling PHENIX refinement PDB_EXTRACT data extraction CBASS data collection PHENIX model building XDS data reduction PHENIX phasing