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Peptidase module of the peptidoglycan hydrolase RipA (Rv1477) from Mycobacterium tuberculosis, catalytic site mutant (Cys383Ala) at 1.45 resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 35% PEG400, 0.2M LiSO4, Tris-HCl pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.82 32.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.83 α = 90 b = 65.85 β = 90 c = 68.01 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 MAR CCD 165 mm Multilayer mirror, curved to focus in the vertical (R = 400 m). 2011-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 1.03873 MAX II I911-2
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 1.45 18.67 99.1 0.068 0.068 15.1 4.8 30245 29973 4 4 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 1.45 1.53 94.4 0.375 0.375 4 4.6 4098
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 1.45 18.57 4 29973 28377 1537 99.4 0.15296 0.15159 0.16 0.17827 0.1846 RANDOM 7.543
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] 0.06 0.2 -0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.644 r_dihedral_angle_3_deg 9.935 r_dihedral_angle_4_deg 8.27 r_dihedral_angle_1_deg 6.288 r_scangle_it 3.377 r_scbond_it 2.1 r_angle_refined_deg 1.498 r_mcangle_it 1.455 r_angle_other_deg 0.911 r_mcbond_it 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.644 r_dihedral_angle_3_deg 9.935 r_dihedral_angle_4_deg 8.27 r_dihedral_angle_1_deg 6.288 r_scangle_it 3.377 r_scbond_it 2.1 r_angle_refined_deg 1.498 r_mcangle_it 1.455 r_angle_other_deg 0.911 r_mcbond_it 0.86 r_mcbond_other 0.241 r_chiral_restr 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1542 Nucleic Acid Atoms Solvent Atoms 244 Heterogen Atoms
Software Software Software Name Purpose MAR345dtb data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling