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Structure of the complete ABCE1/RNAase-L Inhibitor protein from Pyrococcus abysii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YQT PDB ENTRY 1yqt
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 anaerobic, 50mM Tris pH 8.0, 150mM NaCl, 5mM dithiothreitol 0.2 M Calcium acetate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.31 46.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.2 α = 90 b = 63.2 β = 90 c = 319.38 γ = 90
Symmetry Space Group P 43 21 2
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 4 2005-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.9793 SLS X06SA
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 2.8 50 97.5 0.148 15.2 16784
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) 2.8 2.9 95.8 0.504 0.504 4.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 Free R-factor PDB ENTRY 1yqt 2.8 20 2 16308 796 96.3 0.208 0.2119 0.275 0.2786 random 31.798
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] -0.701 -0.701 1.402
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.891 c_mcangle_it 2.234 c_scbond_it 1.875 c_angle_deg 1.353 c_mcbond_it 1.297 c_bond_d 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4729 Nucleic Acid Atoms Solvent Atoms 114 Heterogen Atoms 72
Software Software Software Name Purpose XSCALE data scaling PHASER phasing CNS refinement PDB_EXTRACT data extraction XDS data reduction