6I7N

Trypanothione Reductase from Leismania infantum in complex with TRL156


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2JK6 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2912.2M ammonium sulphate, 0.1M Tris-HCl pH 8-8.5
Crystal Properties
Matthews coefficientSolvent content
2.244.11

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 94.184α = 90
b = 106.387β = 90
c = 186.548γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2017-09-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.979260ALBAXALOC

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rpim I (All)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
13.346.6881.70.070.995.23.323420
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.33.560.390.792.6

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 REPLACEMENTTHROUGHOUT2JK63.346.6822213111180.660.238250.236540.27323RANDOM85.879
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]
5.35-0.58-4.77
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.91
r_dihedral_angle_3_deg17.855
r_dihedral_angle_4_deg17.136
r_long_range_B_refined12.478
r_long_range_B_other12.444
r_dihedral_angle_1_deg7.438
r_mcangle_it6.386
r_mcangle_other6.376
r_scangle_other6.308
r_mcbond_it3.807
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.91
r_dihedral_angle_3_deg17.855
r_dihedral_angle_4_deg17.136
r_long_range_B_refined12.478
r_long_range_B_other12.444
r_dihedral_angle_1_deg7.438
r_mcangle_it6.386
r_mcangle_other6.376
r_scangle_other6.308
r_mcbond_it3.807
r_mcbond_other3.794
r_scbond_it3.752
r_scbond_other3.75
r_angle_refined_deg1.606
r_angle_other_deg1.331
r_chiral_restr0.071
r_bond_refined_d0.008
r_gen_planes_refined0.007
r_gen_planes_other0.002
r_bond_other_d0.001
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 Atoms7401
Nucleic Acid Atoms
Solvent Atoms195
Heterogen Atoms170

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
MOLREPphasing