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Peptidase module of the peptidoglycan hydrolase RipA (Rv1477) from Mycobacterium tuberculosis at 1.38 resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 0.2 M lithium sulphate, 0.1M Tris HCl pH 8.5, 35%w/v PEG 400, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.84 33.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.797 α = 90 b = 66.431 β = 90 c = 68.129 γ = 90
Symmetry Space Group P 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 ADSC QUANTUM 315r mirrors 2009-09-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9793 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.38 66.4 98.5 0.073 0.073 12.9 4.3 16683 16433 3 3 10.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.38 1.416 83.94 0.381 0.381 3 3.6 4569
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 1.38 66.4 3 3 32788 16433 1730 98.28 0.12227 0.11989 0.1246 0.16662 0.1687 RANDOM 9.664
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] 0.3 -0.06 -0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.804 r_dihedral_angle_4_deg 14.507 r_sphericity_free 12.302 r_dihedral_angle_3_deg 10.527 r_dihedral_angle_1_deg 6.108 r_scangle_it 5.624 r_sphericity_bonded 4.256 r_scbond_it 4.075 r_mcangle_it 2.964 r_mcbond_it 2.132
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.804 r_dihedral_angle_4_deg 14.507 r_sphericity_free 12.302 r_dihedral_angle_3_deg 10.527 r_dihedral_angle_1_deg 6.108 r_scangle_it 5.624 r_sphericity_bonded 4.256 r_scbond_it 4.075 r_mcangle_it 2.964 r_mcbond_it 2.132 r_rigid_bond_restr 1.97 r_angle_refined_deg 1.921 r_angle_other_deg 1.064 r_mcbond_other 0.934 r_chiral_restr 0.128 r_bond_refined_d 0.023 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1543 Nucleic Acid Atoms Solvent Atoms 264 Heterogen Atoms
Software Software Software Name Purpose DNA data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling