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Crystal structure of acetyltransferase Eis from Mycobacterium tuberculosis in complex with inhibitor SGT572
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6X10
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 0.1 M Tris-HCl pH 8.5, 13% PEG 8000 and 0.4 M (NH4)2SO4, 5 mM kanamycin, 4 mM CoA. Kanamycin, CoA and (NH4)2SO4 were replaced by 0.5 mM inhibitor on soaking.
Crystal Properties Matthews coefficient Solvent content 4.23 70.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 175.108 α = 90 b = 175.108 β = 90 c = 123.74 γ = 120
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 EIGER X 16M 2018-04-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.00 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.08 50 99.4 0.09 1 2.2 6.4 43424
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.08 2.12 0.77 0.85
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6X10 2.08 40.003 43359 2138 99.258 0.172 0.1706 0.1777 0.192 0.2053 31.775
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] -1.313 -0.656 -1.313 4.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.019 r_dihedral_angle_4_deg 16.906 r_dihedral_angle_3_deg 14.291 r_dihedral_angle_1_deg 6.789 r_lrange_it 5.566 r_lrange_other 5.287 r_scangle_it 2.803 r_scangle_other 2.802 r_mcangle_it 2.405 r_mcangle_other 2.405
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.019 r_dihedral_angle_4_deg 16.906 r_dihedral_angle_3_deg 14.291 r_dihedral_angle_1_deg 6.789 r_lrange_it 5.566 r_lrange_other 5.287 r_scangle_it 2.803 r_scangle_other 2.802 r_mcangle_it 2.405 r_mcangle_other 2.405 r_scbond_it 1.651 r_scbond_other 1.651 r_mcbond_it 1.386 r_mcbond_other 1.384 r_angle_refined_deg 1.25 r_angle_other_deg 1.152 r_nbd_other 0.184 r_symmetry_nbd_other 0.183 r_nbd_refined 0.182 r_nbtor_refined 0.153 r_symmetry_nbd_refined 0.151 r_symmetry_xyhbond_nbd_refined 0.148 r_xyhbond_nbd_refined 0.141 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.052 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3028 Nucleic Acid Atoms Solvent Atoms 347 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing