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Complete human RNase L in complex with 2-5A (5'-ppp heptamer), AMPPCP and RNA substrate.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4G8L PDB ENTRY 4G8L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 277 RNase L (21-719) (15 mg/ml in buffer containing 20 mM HEPES pH 7.5, 109 mM
NaCl, 5 mM MgCl2, 5 mM DTT, 2.8 mM ATP or AMP-PCP, and 10% glycerol) was
mixed with 2-5A and RNA18 at molar ratio 1:1.5:1, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.41 63.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.61 α = 90 b = 160.7 β = 90 c = 230.8 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 77 CCD ADSC QUANTUM 315 2013-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 46.7 100 128179 128124
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB ENTRY 4G8L 2.1 46.622 1.36 128124 128099 6405 99.95 0.1995 0.198 0.2009 0.2287 0.2318 RANDOM
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 20.844 f_angle_d 0.922 f_chiral_restr 0.072 f_bond_d 0.004 f_plane_restr 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10751 Nucleic Acid Atoms 202 Solvent Atoms 911 Heterogen Atoms 99
Software Software Software Name Purpose CBASS data collection PHENIX model building PHENIX refinement XDS data reduction XDS data scaling PHENIX phasing