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1.16 Angstrom Resolution Crystal Structure of Acyl Carrier Protein Domain (residues 1-100) of Polyketide Synthase Pks13 from Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 293 Protein: 10.4 mg/ml, 0.5M Sodium chloride, 0.01M Tris pH 8.3;
Screen: AmSO4 (H8) 3.0M Ammonium sulfate, 1% (w/v) MPD.
Cryo: Screen + 25% Ethylene Glycol
Crystal Properties Matthews coefficient Solvent content 2.23 44.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.889 α = 90 b = 51.889 β = 90 c = 74.427 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 MARMOSAIC 300 mm CCD C(111) 2017-10-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.16 30 99.9 0.092 0.092 0.096 0.028 37.4 11.5 35889 -3 10.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.16 1.18 100 0.808 0.808 0.855 0.276 0.798 2.8 9.4
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 SAD THROUGHOUT 1.16 26.13 34027 1793 99.84 0.13029 0.12952 0.1328 0.14456 0.1463 RANDOM 16.387
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] -0.11 -0.11 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.069 r_dihedral_angle_4_deg 18.316 r_sphericity_free 13.793 r_rigid_bond_restr 11.523 r_dihedral_angle_3_deg 9.877 r_sphericity_bonded 7.746 r_dihedral_angle_1_deg 4.216 r_long_range_B_refined 2.892 r_long_range_B_other 2.605 r_scangle_other 2.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.069 r_dihedral_angle_4_deg 18.316 r_sphericity_free 13.793 r_rigid_bond_restr 11.523 r_dihedral_angle_3_deg 9.877 r_sphericity_bonded 7.746 r_dihedral_angle_1_deg 4.216 r_long_range_B_refined 2.892 r_long_range_B_other 2.605 r_scangle_other 2.121 r_scbond_it 1.835 r_scbond_other 1.834 r_mcangle_it 1.578 r_mcangle_other 1.577 r_angle_refined_deg 1.392 r_mcbond_it 1.13 r_mcbond_other 1.13 r_angle_other_deg 0.847 r_chiral_restr 0.093 r_gen_planes_refined 0.025 r_gen_planes_other 0.021 r_bond_refined_d 0.009 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 634 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing