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Crystal structure of Eis from Mycobacterium tuberculosis in complex with inhibitor SGT335
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3R1K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 294 100 mM Tris-HCl pH 8.0 adjusted at room temperature, 10% w/v PEG 8000, and 400 mM (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 3.96 68.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 175.441 α = 90 b = 175.441 β = 90 c = 122.946 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 2019-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.55 50 99.7 0.107 16.1 5.7 24075 2
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 2.55 2.59 99.8 0.612 5.4
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 (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 3R1K 2.55 35 22380 1193 99.16 0.17724 0.17561 0.1807 0.20624 0.2106 RANDOM 37.055
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] -1.68 -0.84 -1.68 5.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.974 r_dihedral_angle_4_deg 17.258 r_dihedral_angle_3_deg 16.505 r_long_range_B_refined 8.245 r_long_range_B_other 8.232 r_dihedral_angle_1_deg 7.102 r_scangle_other 5.103 r_mcangle_it 4.101 r_mcangle_other 4.1 r_scbond_it 3.161
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.974 r_dihedral_angle_4_deg 17.258 r_dihedral_angle_3_deg 16.505 r_long_range_B_refined 8.245 r_long_range_B_other 8.232 r_dihedral_angle_1_deg 7.102 r_scangle_other 5.103 r_mcangle_it 4.101 r_mcangle_other 4.1 r_scbond_it 3.161 r_scbond_other 3.085 r_mcbond_other 2.428 r_mcbond_it 2.427 r_angle_refined_deg 1.416 r_angle_other_deg 1.181 r_chiral_restr 0.057 r_bond_refined_d 0.006 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 3047 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing