6SLT

Flavin-dependent tryptophan 6-halogenase Thal in complex with tryptophan and FAD


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6H43 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION8.4293.5reservoir: 0.1M bicine pH 8.4, 1.6M K2HPO4/KH2PO4 protein concentration: ~15mg/mL drop ratio: 2:1 (P:R) protein buffer: 10 mM Tris pH 8.4, 50 mM NaCl and 1 mM TCEP
Crystal Properties
Matthews coefficientSolvent content
3.2962.57

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 138.25α = 90
b = 138.25β = 90
c = 142.01γ = 120
Symmetry
Space GroupP 64

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2017-11-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPETRA III, EMBL c/o DESY BEAMLINE P13 (MX1)1.0PETRA III, EMBL c/o DESYP13 (MX1)

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
12.7501000.1720.1810.0560.99814.620.74232863.553
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)
12.72.81001.6961.7850.5560.7752.120.4

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 REPLACEMENTTHROUGHOUT6H432.749.5840099219599.980.18860.18570.2442RANDOM69.882
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]
0.720.360.72-2.34
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.744
r_dihedral_angle_4_deg18.222
r_dihedral_angle_3_deg17.651
r_dihedral_angle_1_deg7.474
r_angle_refined_deg1.588
r_angle_other_deg1.245
r_chiral_restr0.067
r_bond_refined_d0.009
r_gen_planes_refined0.007
r_gen_planes_other0.002
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.744
r_dihedral_angle_4_deg18.222
r_dihedral_angle_3_deg17.651
r_dihedral_angle_1_deg7.474
r_angle_refined_deg1.588
r_angle_other_deg1.245
r_chiral_restr0.067
r_bond_refined_d0.009
r_gen_planes_refined0.007
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8404
Nucleic Acid Atoms
Solvent Atoms75
Heterogen Atoms142

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
PHASERphasing