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Novel Bacterial NAD+-dependent DNA Ligase Inhibitors with Broad Spectrum Potency and Antibacterial Efficacy In Vivo
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 16% (w/v) polyethylene glycol (PEG) 3500, 350mM sodium potassium tartrate, pH 7.5, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 3.71 66.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.806 α = 90 b = 137.806 β = 90 c = 56.023 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD RIGAKU SATURN 944 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ DW
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 25.95 99 36612
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 MOLECULAR REPLACEMENT THROUGHOUT 2 25.95 36612 1827 98.95 0.2029 0.2014 0.2011 0.2312 0.23 RANDOM 27.4439
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 -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.133 r_dihedral_angle_4_deg 20.798 r_dihedral_angle_3_deg 15.171 r_dihedral_angle_1_deg 6.766 r_scangle_it 5.214 r_scbond_it 3.386 r_mcangle_it 2.175 r_angle_refined_deg 2.052 r_mcbond_it 1.269 r_chiral_restr 0.143
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.133 r_dihedral_angle_4_deg 20.798 r_dihedral_angle_3_deg 15.171 r_dihedral_angle_1_deg 6.766 r_scangle_it 5.214 r_scbond_it 3.386 r_mcangle_it 2.175 r_angle_refined_deg 2.052 r_mcbond_it 1.269 r_chiral_restr 0.143 r_bond_refined_d 0.026 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2515 Nucleic Acid Atoms Solvent Atoms 215 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection DENZO data reduction SCALEPACK data scaling SCALA data scaling AMoRE phasing