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2.25 Angstrom Resolution Crystal Structure of Long-chain-fatty-acid-AMP Ligase FadD32 from Mycobacterium tuberculosis in complex with Inhibitor 5'-O-[(11-phenoxyundecanoyl)sulfamoyl]adenosine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.6 295 Protein: 6.0 mG/mL, 0.1M Pottasium chloride, 0.01 M Tris-HCL buffer pH 8.3, 5% glycerol, and 0.5 mM TCEP;
Screen: Cubic Phase I (F10), 2.4 M Na/K phosphate pH 7.6
Crystal Properties Matthews coefficient Solvent content 2.02 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.779 α = 90 b = 74.558 β = 90 c = 127.762 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 MARMOSAIC 300 mm CCD Si(111) 2014-03-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.97875 APS 21-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.25 30 99.9 0.074 0.074 18.4 4.9 29261 -3 49.5
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 2.25 2.29 100 0.583 2.8 4.9
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 2.25 29.36 27630 1478 99.75 0.18761 0.18484 0.1899 0.23875 0.2445 RANDOM 62.991
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] 0.18 2.45 -2.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.544 r_dihedral_angle_4_deg 11.575 r_dihedral_angle_3_deg 10.309 r_long_range_B_refined 7.104 r_long_range_B_other 7.104 r_scangle_other 4.26 r_mcangle_it 3.877 r_mcangle_other 3.877 r_scbond_it 2.742 r_scbond_other 2.742
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.544 r_dihedral_angle_4_deg 11.575 r_dihedral_angle_3_deg 10.309 r_long_range_B_refined 7.104 r_long_range_B_other 7.104 r_scangle_other 4.26 r_mcangle_it 3.877 r_mcangle_other 3.877 r_scbond_it 2.742 r_scbond_other 2.742 r_dihedral_angle_1_deg 2.572 r_mcbond_it 2.518 r_mcbond_other 2.511 r_angle_refined_deg 1.521 r_angle_other_deg 0.731 r_chiral_restr 0.084 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 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 4804 Nucleic Acid Atoms Solvent Atoms 131 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing