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1.9 Angstrom Resolution Crystal Structure of Acyl Carrier Protein Domain (residues 1350-1461) of Polyketide Synthase Pks13 from Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 Protein: 9.0 mg/ml, 0.01M Tris pH 8.3;
Screen: PEGs II (B2) 0.01M Zinc sulfate, 0.1M MES pH 6.5, 25% (w/v) PEG 550 MME
Crystal Properties Matthews coefficient Solvent content 2.1 41.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.189 α = 90 b = 58.189 β = 90 c = 101.683 γ = 120
Symmetry Space Group P 61 2 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 1.9 30 100 0.062 0.062 0.064 0.015 46.7 17.7 8588 -3 33.5
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 1.9 1.93 100 0.72 0.72 0.741 0.172 0.924 5.2 18.2
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 1.9 29.09 8113 435 99.95 0.19478 0.19346 0.2026 0.21731 0.2182 RANDOM 39.758
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] -0.72 -0.36 -0.72 2.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.91 r_dihedral_angle_4_deg 10.388 r_dihedral_angle_3_deg 8.918 r_long_range_B_refined 5.675 r_long_range_B_other 5.611 r_scangle_other 3.707 r_dihedral_angle_1_deg 2.367 r_scbond_it 2.308 r_scbond_other 2.304 r_mcangle_it 2.156
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.91 r_dihedral_angle_4_deg 10.388 r_dihedral_angle_3_deg 8.918 r_long_range_B_refined 5.675 r_long_range_B_other 5.611 r_scangle_other 3.707 r_dihedral_angle_1_deg 2.367 r_scbond_it 2.308 r_scbond_other 2.304 r_mcangle_it 2.156 r_mcangle_other 2.153 r_mcbond_it 1.45 r_mcbond_other 1.44 r_angle_refined_deg 1.237 r_angle_other_deg 0.841 r_chiral_restr 0.077 r_gen_planes_refined 0.021 r_gen_planes_other 0.019 r_bond_refined_d 0.007 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 610 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing