2ARD

The structure of tryptophan 7-halogenase (PrnA) suggests a mechanism for regioselective chlorination


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2AR8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52938% PEG20000, 0.1M Mes pH6.5, 5mM FAD, 30mM sodium dithionite , VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.652.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 68.3α = 90
b = 68.3β = 90
c = 274.9γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS II2004-09-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007

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
12.5954.8298.20.0920.08983.9711.52.557.69
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)
12.592.6996.396.30.3210.323.33.871872

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2AR82.654.820795106898.520.2140.210.2110.273RANDOM29.698
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]
0.250.25-0.5
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.553
r_dihedral_angle_4_deg19.254
r_dihedral_angle_3_deg18.594
r_dihedral_angle_1_deg6.821
r_scangle_it3.232
r_scbond_it1.986
r_angle_refined_deg1.8
r_mcangle_it1.293
r_mcbond_it0.721
r_nbtor_refined0.324
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.553
r_dihedral_angle_4_deg19.254
r_dihedral_angle_3_deg18.594
r_dihedral_angle_1_deg6.821
r_scangle_it3.232
r_scbond_it1.986
r_angle_refined_deg1.8
r_mcangle_it1.293
r_mcbond_it0.721
r_nbtor_refined0.324
r_symmetry_vdw_refined0.245
r_nbd_refined0.239
r_symmetry_hbond_refined0.169
r_xyhbond_nbd_refined0.166
r_chiral_restr0.113
r_bond_refined_d0.017
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4008
Nucleic Acid Atoms
Solvent Atoms93
Heterogen Atoms53

Software

Software
Software NamePurpose
d*TREKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
d*TREKdata reduction
MOLREPphasing