8F4W

Crystal structure of acetyltransferase Eis from M. tuberculosis in complex with venlafaxine


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3R1K 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP294Tris-HCl pH 8.5 (0.1 M), PEG 8000 (10% w/v), and (NH4)2SO4 (0.5 M)
Crystal Properties
Matthews coefficientSolvent content
3.9869.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 175.008α = 90
b = 175.008β = 90
c = 124.366γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2018-07-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)CC (Half)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
12.15098.80.0712.17.842039
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.140.83

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3R1K2.143.7939971206898.440.167970.166670.19335RANDOM33.795
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]
-1.4-0.7-1.44.54
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.479
r_dihedral_angle_4_deg13.906
r_dihedral_angle_3_deg13.289
r_long_range_B_refined8.537
r_long_range_B_other8.436
r_scangle_other6.652
r_dihedral_angle_1_deg6.586
r_scbond_it4.529
r_scbond_other4.528
r_mcangle_it4.406
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.479
r_dihedral_angle_4_deg13.906
r_dihedral_angle_3_deg13.289
r_long_range_B_refined8.537
r_long_range_B_other8.436
r_scangle_other6.652
r_dihedral_angle_1_deg6.586
r_scbond_it4.529
r_scbond_other4.528
r_mcangle_it4.406
r_mcangle_other4.405
r_mcbond_it2.967
r_mcbond_other2.966
r_angle_other_deg2.311
r_angle_refined_deg1.62
r_chiral_restr0.08
r_bond_other_d0.035
r_bond_refined_d0.011
r_gen_planes_other0.011
r_gen_planes_refined0.009
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3028
Nucleic Acid Atoms
Solvent Atoms303
Heterogen Atoms80

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
HKL-2000data reduction
PHASERphasing