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Crystal structure of acetyltransferase Eis from Mycobacterium tuberculosis in complex with a Lys-containing peptide
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 8.5 295 peptide (1 mM) and CoA (1 mM) with protein in a 1:1 ration with reservoir solution (Tris-HCl (100 mM, pH 8.5) and PEG 8,000 (13% w/v))
Crystal Properties Matthews coefficient Solvent content 2.5 50.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.902 α = 90 b = 175.866 β = 120.49 c = 85.129 γ = 90
Symmetry Space Group C 1 2 1
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 2012-10-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97 APS 21-ID-G
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 2.8 37.71 87 0.06 14 2.9 30053 2.8
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 2.8 2.85 87 0.24
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 2.8 37 28341 1486 87.11 0.21424 0.21192 0.2139 0.25953 0.2633 RANDOM 59.785
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] -0.01 -0.11 0.21 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.124 r_dihedral_angle_3_deg 16.067 r_dihedral_angle_4_deg 14.605 r_dihedral_angle_1_deg 5.667 r_long_range_B_refined 5.535 r_long_range_B_other 5.534 r_mcangle_it 3.47 r_mcangle_other 3.47 r_scangle_other 3.14 r_mcbond_it 1.994
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.124 r_dihedral_angle_3_deg 16.067 r_dihedral_angle_4_deg 14.605 r_dihedral_angle_1_deg 5.667 r_long_range_B_refined 5.535 r_long_range_B_other 5.534 r_mcangle_it 3.47 r_mcangle_other 3.47 r_scangle_other 3.14 r_mcbond_it 1.994 r_mcbond_other 1.994 r_scbond_it 1.812 r_scbond_other 1.803 r_angle_refined_deg 1.207 r_angle_other_deg 0.887 r_chiral_restr 0.065 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 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 9136 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 87
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling HKL-2000 phasing