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A mutant form of M. tb toxin MazEF-mt1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6KYS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 20% poly (ethylene glycol) 3350, 0.1 M NaOAc (pH 5.0), and 0.1 M NaCl
Crystal Properties Matthews coefficient Solvent content 1.74 29.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.313 α = 90 b = 42.313 β = 90 c = 87.612 γ = 120
Symmetry Space Group P 31 2 1
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 OXFORD ONYX CCD 2019-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OXFORD DIFFRACTION SUPERNOVA 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.9 21.9 99.9 0.089 0.998 17 8.3 7614 21.7376684597
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 0.973 0.669 1.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6KYS 1.90044665179 20.5652061793 1.33792440413 7584 379 99.9736356446 0.19884316004 0.19695247723 0.2006 0.232803375054 0.2402 26.5825143967
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 19.9757998935 f_angle_d 0.601048009812 f_chiral_restr 0.0459294277489 f_bond_d 0.00293694671018 f_plane_restr 0.00277741330599
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 821 Nucleic Acid Atoms Solvent Atoms 62 Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement CrysalisPro data reduction CrysalisPro data scaling PHASER phasing