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T-state crystal structure of pyruvate kinase from Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 277 12% PEG 8000, 20% glycerol, 50 mM triethanolamine-HCl (TEA) buffer pH 7.2, 100 mM KCl, 50 mM MgCl2
Crystal Properties Matthews coefficient Solvent content 3.52 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.76 α = 90 b = 129.48 β = 90 c = 243.98 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 PIXEL DECTRIS PILATUS 2M-F 2016-03-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.000 SLS X06DA
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 2.85 88.79 99.4 7.9 4 67441
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.85 2.92 99.9 1.1 3.5
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 2.85 88.79 63878 3479 99.1 0.20697 0.20556 0.2098 0.23303 0.2342 RANDOM 74.045
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] -3.66 5.34 -1.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.088 r_dihedral_angle_4_deg 21.056 r_dihedral_angle_3_deg 19.668 r_long_range_B_refined 5.922 r_long_range_B_other 5.911 r_dihedral_angle_1_deg 5.711 r_scangle_other 3.789 r_mcangle_it 3.651 r_mcangle_other 3.651 r_scbond_it 2.403
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.088 r_dihedral_angle_4_deg 21.056 r_dihedral_angle_3_deg 19.668 r_long_range_B_refined 5.922 r_long_range_B_other 5.911 r_dihedral_angle_1_deg 5.711 r_scangle_other 3.789 r_mcangle_it 3.651 r_mcangle_other 3.651 r_scbond_it 2.403 r_scbond_other 2.371 r_mcbond_it 2.321 r_mcbond_other 2.321 r_angle_refined_deg 1.176 r_angle_other_deg 0.679 r_chiral_restr 0.071 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13540 Nucleic Acid Atoms Solvent Atoms 234 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing