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Crystal Structure of M. tuberculosis LD-transpeptidase type 2 with 2-Mercaptoethanol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 7.5 298 0.1 M Hepes (pH 7.5), 1 M succinic Acid, 1% (w/v) PEG MME 2000, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.51 64.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.689 α = 90 b = 121.013 β = 90 c = 122.799 γ = 90
Symmetry Space Group I 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 RIGAKU SATURN 944+ 2009-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE OTHER 1.5418
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 2.4 15.52 34413
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 2.4 15.52 34413 1743 99.79 0.1884 0.1854 0.1801 0.2442 0.234 RANDOM 36.5363
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] 3.64 -1.24 -2.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.892 r_dihedral_angle_3_deg 15.918 r_dihedral_angle_4_deg 14.527 r_dihedral_angle_1_deg 6.502 r_scangle_it 5.543 r_scbond_it 3.564 r_mcangle_it 2.047 r_angle_refined_deg 1.905 r_mcbond_it 1.095 r_chiral_restr 0.138
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.892 r_dihedral_angle_3_deg 15.918 r_dihedral_angle_4_deg 14.527 r_dihedral_angle_1_deg 6.502 r_scangle_it 5.543 r_scbond_it 3.564 r_mcangle_it 2.047 r_angle_refined_deg 1.905 r_mcbond_it 1.095 r_chiral_restr 0.138 r_bond_refined_d 0.023 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3998 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction