6T98

Trypanothione Reductase from Leishmania infantum in complex with 9a


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82912.2M ammonium sulphate, 0.1M Tris-HCl pH 8-8.5
Crystal Properties
Matthews coefficientSolvent content
4.8874.78

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 103.43α = 90
b = 103.43β = 90
c = 192.79γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2017-10-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.979260ALBAXALOC

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)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
1368.3898.90.1720.1920.0810.9655.65.321445
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
133.1899.50.6650.7330.2980.8315.7

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 REPLACEMENTTHROUGHOUT2JK6368.3820315105198.490.2170.21490.2571RANDOM65.543
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]
2.852.85-5.7
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.274
r_dihedral_angle_4_deg18.459
r_dihedral_angle_3_deg16.251
r_dihedral_angle_1_deg13.313
r_angle_refined_deg1.511
r_angle_other_deg1.251
r_chiral_restr0.063
r_bond_refined_d0.007
r_gen_planes_refined0.005
r_gen_planes_other0.005
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.274
r_dihedral_angle_4_deg18.459
r_dihedral_angle_3_deg16.251
r_dihedral_angle_1_deg13.313
r_angle_refined_deg1.511
r_angle_other_deg1.251
r_chiral_restr0.063
r_bond_refined_d0.007
r_gen_planes_refined0.005
r_gen_planes_other0.005
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3701
Nucleic Acid Atoms
Solvent Atoms130
Heterogen Atoms138

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction
MOLREPphasing