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Structure of the Mycobacterium tuberculosis APS kinase CysC Cys556Ala mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BZP PDB entry 4BZP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 21% PEG 3350, 0.2M ammonium nitrate, 5mM magnesium chloride, 5mM ADP, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.167 α = 90 b = 71.158 β = 90 c = 118.56 γ = 90
Symmetry Space Group C 2 2 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 PIXEL PSI PILATUS 6M mirrors 2014-08-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91842 BESSY 14.1
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 1.69 59.28 99.9 0.063 0.063 13.9 5.9 32714 32681 3 3 16.8
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 1.69 1.72 99.1 0.47 0.47 3 6 1620
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 PDB entry 4BZP 1.69 59.28 3 31032 31032 1606 99.97 0.18619 0.18427 0.1935 0.22275 0.2306 RANDOM 24.155
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] 0.47 0.28 -0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.531 r_dihedral_angle_3_deg 13.933 r_dihedral_angle_4_deg 12.573 r_long_range_B_refined 6.563 r_long_range_B_other 6.306 r_dihedral_angle_1_deg 5.11 r_scangle_other 4.177 r_mcangle_it 2.801 r_mcangle_other 2.8 r_scbond_it 2.688
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.531 r_dihedral_angle_3_deg 13.933 r_dihedral_angle_4_deg 12.573 r_long_range_B_refined 6.563 r_long_range_B_other 6.306 r_dihedral_angle_1_deg 5.11 r_scangle_other 4.177 r_mcangle_it 2.801 r_mcangle_other 2.8 r_scbond_it 2.688 r_scbond_other 2.663 r_mcbond_it 1.849 r_mcbond_other 1.846 r_angle_refined_deg 1.548 r_angle_other_deg 0.8 r_chiral_restr 0.086 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2190 Nucleic Acid Atoms Solvent Atoms 254 Heterogen Atoms 5
Software Software Software Name Purpose DNA data collection PHASER phasing REFMAC refinement XDS data reduction Aimless data scaling