6EL0

Direct-evolutioned unspecific peroxygenase from Agrocybe aegerita, in complex with styrene


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5OXU 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.62911.5 M sodium potassium phosphate pH 5.6, 3% MPD, soaking 20mM styrene, 20% methanol
Crystal Properties
Matthews coefficientSolvent content
2.4249.15

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.229α = 90
b = 57.731β = 109.7
c = 61.018γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MKb mirros2015-04-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.9795ALBAXALOC

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
11.6545.1995.70.0910.0490.99610.64.138673
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.651.6895.4

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT5OXU1.6545.1936734193395.620.154770.153770.17355RANDOM15.924
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]
-0.070.44-0.640.31
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.042
r_dihedral_angle_4_deg16.326
r_dihedral_angle_3_deg12.435
r_dihedral_angle_1_deg5.733
r_long_range_B_refined3.959
r_long_range_B_other3.958
r_scangle_other1.611
r_angle_refined_deg1.302
r_mcangle_it1.15
r_mcangle_other1.15
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.042
r_dihedral_angle_4_deg16.326
r_dihedral_angle_3_deg12.435
r_dihedral_angle_1_deg5.733
r_long_range_B_refined3.959
r_long_range_B_other3.958
r_scangle_other1.611
r_angle_refined_deg1.302
r_mcangle_it1.15
r_mcangle_other1.15
r_angle_other_deg0.979
r_scbond_it0.962
r_scbond_other0.962
r_mcbond_it0.664
r_mcbond_other0.662
r_chiral_restr0.08
r_bond_refined_d0.007
r_gen_planes_refined0.007
r_gen_planes_other0.007
r_bond_other_d0.003
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2510
Nucleic Acid Atoms
Solvent Atoms324
Heterogen Atoms146

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
MOLREPphasing