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The structure of muscle pyruvate kinase in complex with proline, pyruvate, and Mn2+
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop vapor diffusion 5.5 298 60 mM Succinate (pH 5.5), 5.8 mM sodium pyruvate, 2.4 mM MnCl2, 450 mM KCl, 444 mM Proline and a range of 18 to 20% PEG 8000., hanging drop vapor diffusion, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.55 51.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.373 α = 95.18 b = 108.747 β = 93.38 c = 144.256 γ = 112.23
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ 2008-07-18 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH2R 1.54
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 2.4 50 83.6 0.123 8.9 3.5 146924
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 2.4 2.49 78.8 0.504 3 13799
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 2.41 36.59 146918 7394 82.98 0.207 0.204 0.2186 0.268 0.2804 RANDOM 5.045
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] 0.56 0.24 0.3 -0.36 0.14 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.381 r_dihedral_angle_4_deg 16.233 r_dihedral_angle_3_deg 15.039 r_dihedral_angle_1_deg 5.275 r_scangle_it 1.482 r_angle_refined_deg 1.125 r_scbond_it 0.893 r_mcangle_it 0.497 r_mcbond_it 0.269 r_chiral_restr 0.073
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.381 r_dihedral_angle_4_deg 16.233 r_dihedral_angle_3_deg 15.039 r_dihedral_angle_1_deg 5.275 r_scangle_it 1.482 r_angle_refined_deg 1.125 r_scbond_it 0.893 r_mcangle_it 0.497 r_mcbond_it 0.269 r_chiral_restr 0.073 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 31683 Nucleic Acid Atoms Solvent Atoms 1427 Heterogen Atoms 314
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing