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Crystal structure of the S. pombe Pop2p deadenylation subunit
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 18-24% PEG 8000, 200 mM Mg(CH3COO), 100-200 mM MES, pH 6.5, 0-10% glycerol, 5 mM BME, 1mM NaN3, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 6.9262 28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.37 α = 90 b = 54.089 β = 90 c = 90.959 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 MAR CCD 165 mm Bent, vertically focussing mirrors 2005-03-10 M SINGLE WAVELENGTH 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8126 EMBL/DESY, HAMBURG X11
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 1.4 46.47 99.6 0.052 26.7 4.7 50856 50856 17.311
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) 1.4 1.42 99.7 0.636 1.98 4.2 2489
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIRAS THROUGHOUT 1.4 46.47 50856 50856 1523 99.6 0.143 0.141 0.139 0.204 0.1889 RANDOM 23.937
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 s_from_restr_planes 0.359 s_non_zero_chiral_vol 0.066 s_angle_d 0.03 s_anti_bump_dis_restr 0.015 s_bond_d 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2084 Nucleic Acid Atoms Solvent Atoms 327 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing SOLOMON phasing SHELX refinement PDB_EXTRACT data extraction SHELXL-97 refinement