3RAO

Crystal Structure of the Luciferase-like Monooxygenase from Bacillus cereus ATCC 10987.


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.52930.1M NaHepes, pH 7.5, 4%PEG400, 2M Ammonium Sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
3.3963.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 126.807α = 90
b = 126.807β = 90
c = 124.234γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2010-03-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.9793APS19-ID

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
12.35096.60.0920.09225.34.15009650096-347
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)
12.32.3498.30.660.662.64.12529

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (All)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 DIFFRACTIONSADTHROUGHOUT2.3504737447374253696.650.169870.169870.167750.20994RANDOM47.199
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]
-0.38-0.19-0.380.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.202
r_dihedral_angle_4_deg16.448
r_dihedral_angle_3_deg13.52
r_dihedral_angle_1_deg5.967
r_angle_refined_deg1.399
r_angle_other_deg0.911
r_chiral_restr0.087
r_bond_refined_d0.015
r_bond_other_d0.011
r_gen_planes_refined0.006
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.202
r_dihedral_angle_4_deg16.448
r_dihedral_angle_3_deg13.52
r_dihedral_angle_1_deg5.967
r_angle_refined_deg1.399
r_angle_other_deg0.911
r_chiral_restr0.087
r_bond_refined_d0.015
r_bond_other_d0.011
r_gen_planes_refined0.006
r_gen_planes_other0.001
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_mcbond_it
r_mcbond_other
r_mcangle_it
r_scbond_it
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5474
Nucleic Acid Atoms
Solvent Atoms285
Heterogen Atoms50

Software

Software
Software NamePurpose
HKL-3000data collection
HKL-3000phasing
SHELXDphasing
SHELXEmodel building
DMmodel building
MLPHAREphasing
CCP4model building
RESOLVEmodel building
ARP/wARPmodel building
REFMACrefinement
Cootmodel building
HKL-3000data reduction
HKL-3000data scaling
DMphasing
CCP4phasing
RESOLVEphasing