2OA1

Crystal Structure of RebH, a FAD-dependent halogenase from Lechevalieria aerocolonigenes, the L-Tryptophan with FAD complex


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2O9Zapo form of same protein in same lattice

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP277Protein Solution (18 mg/ml protein, 0.050 M sodium chloride, 0.010 M TRIS pH 8.0) mixed in a 1:1 ratio with the Well Solution (0.9 M K2HPO4, 0.5 M NaH2PO4) crystals soaked for 22 hours in solution of 0.6 M K2HPO4, 0.33 M NaH2PO4, ~0.005 M FAD, ~0.003 M L-tryptophan, 0.030 M NaCl, Cryoprotected with: well solution supplemented with up to 30% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.564.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 114.492α = 90
b = 114.492β = 90
c = 231.935γ = 120
Symmetry
Space GroupP 62

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDAdjustable focusing mirrors in K-B geometry2006-06-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-D0.97931APS23-ID-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.1549.57698.80.10224.90520.492078
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.152.290.90.5343.6289.45634

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 DIFFRACTION2O9ZTHROUGHOUTapo form of same protein in same lattice2.1519.95291914463098.8460.1540.1520.194RANDOM38.03
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]
0.0310.0150.031-0.046
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.395
r_dihedral_angle_4_deg15.397
r_dihedral_angle_3_deg13.511
r_dihedral_angle_1_deg6.171
r_scangle_it3.39
r_scbond_it2.086
r_angle_refined_deg1.412
r_mcangle_it1.157
r_mcbond_it0.725
r_nbtor_refined0.304
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.395
r_dihedral_angle_4_deg15.397
r_dihedral_angle_3_deg13.511
r_dihedral_angle_1_deg6.171
r_scangle_it3.39
r_scbond_it2.086
r_angle_refined_deg1.412
r_mcangle_it1.157
r_mcbond_it0.725
r_nbtor_refined0.304
r_symmetry_hbond_refined0.245
r_nbd_refined0.194
r_symmetry_vdw_refined0.184
r_xyhbond_nbd_refined0.149
r_chiral_restr0.098
r_bond_refined_d0.015
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8468
Nucleic Acid Atoms
Solvent Atoms1056
Heterogen Atoms103

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction