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Crystal structure of Peptidyl-tRNA hydrolase from Mycobacterium tuberculosis - Form 4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z2I PDB ENTRY 2Z2I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Microbatch under oil 7.5 291 0.1M HEPES, 15% PEG 8000, 5% isoproponal, pH 7.5, Microbatch under oil, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.11 41.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.3 α = 90 b = 38.81 β = 90 c = 122.88 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 IMAGE PLATE MAR scanner 345 mm plate mirrors 2010-07-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
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 2.3 40 95.4 0.158 11.4 6.2 7780 28.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.42
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 PDB ENTRY 2Z2I 2.3 30 7780 412 0.2244 0.224 0.268 0.2668 Random 20.395
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] 2.619 -0.88 -1.739
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.677 c_mcangle_it 2.219 c_scbond_it 1.881 c_angle_refined_deg 1.8 c_mcbond_it 1.396 c_bond_refined_d 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1398 Nucleic Acid Atoms Solvent Atoms 260 Heterogen Atoms
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing CNS refinement MOSFLM data reduction SCALA data scaling