8RNR

Unspecific peroxygenase from Marasmius wettsteinii (MweUPO-1) in complex with tetradecane


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29112% PEG 4000, 200mM ammonium sulfate. Soaking: 25mM tetradecane, 16 hours, cryoprotected with 15% glycerol
Crystal Properties
Matthews coefficientSolvent content
2.5451.69

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.122α = 90
b = 76.122β = 90
c = 186.552γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MKB MIRRORS2021-11-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOC0.9793ALBAXALOC

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
11.7248.1698.40.0420.0460.0190.99921657947
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)
11.721.750.5180.5640.2210.9423.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT1.7246.6655027289897.880.180990.17990.20136RANDOM30.639
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]
0.930.93-1.85
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg13.098
r_dihedral_angle_1_deg6.515
r_dihedral_angle_2_deg6.216
r_long_range_B_refined5.184
r_long_range_B_other5.183
r_scangle_other4.007
r_mcangle_it2.831
r_mcangle_other2.831
r_scbond_it2.584
r_scbond_other2.583
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg13.098
r_dihedral_angle_1_deg6.515
r_dihedral_angle_2_deg6.216
r_long_range_B_refined5.184
r_long_range_B_other5.183
r_scangle_other4.007
r_mcangle_it2.831
r_mcangle_other2.831
r_scbond_it2.584
r_scbond_other2.583
r_mcbond_it1.942
r_mcbond_other1.942
r_angle_refined_deg1.341
r_angle_other_deg0.538
r_chiral_restr0.067
r_gen_planes_other0.011
r_gen_planes_refined0.008
r_bond_refined_d0.006
r_bond_other_d0.001
r_dihedral_angle_4_deg
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 Atoms3642
Nucleic Acid Atoms
Solvent Atoms465
Heterogen Atoms252

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing