4RFV

Structure of the Mycobacterium tuberculosis APS kinase CysC Cys556Ala mutant


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP829321% 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 = 68.167α = 90
b = 71.158β = 90
c = 118.56γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6Mmirrors2014-08-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.91842BESSY14.1

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)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.6959.2899.90.0630.06313.95.932714326813316.8
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)RedundancyNumber Unique Reflections (All)
11.691.7299.10.470.47361620

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 4BZP1.6959.2833103231032160699.970.186190.184270.22275RANDOM24.155
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]
0.470.28-0.75
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.531
r_dihedral_angle_3_deg13.933
r_dihedral_angle_4_deg12.573
r_long_range_B_refined6.563
r_long_range_B_other6.306
r_dihedral_angle_1_deg5.11
r_scangle_other4.177
r_mcangle_it2.801
r_mcangle_other2.8
r_scbond_it2.688
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.531
r_dihedral_angle_3_deg13.933
r_dihedral_angle_4_deg12.573
r_long_range_B_refined6.563
r_long_range_B_other6.306
r_dihedral_angle_1_deg5.11
r_scangle_other4.177
r_mcangle_it2.801
r_mcangle_other2.8
r_scbond_it2.688
r_scbond_other2.663
r_mcbond_it1.849
r_mcbond_other1.846
r_angle_refined_deg1.548
r_angle_other_deg0.8
r_chiral_restr0.086
r_bond_refined_d0.013
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2190
Nucleic Acid Atoms
Solvent Atoms254
Heterogen Atoms5

Software

Software
Software NamePurpose
DNAdata collection
PHASERphasing
REFMACrefinement
XDSdata reduction
Aimlessdata scaling