2IUF

The structures of Penicillium vitale catalase: resting state, oxidised state (compound I) and complex with aminotriazole


X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.5651.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 142.44α = 90
b = 142.44β = 90
c = 132.23γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray120IMAGE PLATERIGAKU RAXIS IIMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

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
11.71120990.075.55156337
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)
11.711.7364.30.293.53

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 DIFFRACTIONOTHERTHROUGHOUT1.71119.52156337828598.90.1310.1290.154RANDOM11.94
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]
-0.21-0.1-0.210.31
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.277
r_dihedral_angle_4_deg13.999
r_dihedral_angle_3_deg11.01
r_dihedral_angle_1_deg6.734
r_scangle_it3.736
r_scbond_it2.594
r_angle_refined_deg1.712
r_mcangle_it1.521
r_mcbond_it1.086
r_angle_other_deg1.037
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.277
r_dihedral_angle_4_deg13.999
r_dihedral_angle_3_deg11.01
r_dihedral_angle_1_deg6.734
r_scangle_it3.736
r_scbond_it2.594
r_angle_refined_deg1.712
r_mcangle_it1.521
r_mcbond_it1.086
r_angle_other_deg1.037
r_symmetry_vdw_refined0.261
r_symmetry_vdw_other0.254
r_symmetry_hbond_refined0.23
r_nbd_refined0.225
r_nbd_other0.211
r_nbtor_refined0.183
r_xyhbond_nbd_refined0.173
r_nbtor_other0.109
r_chiral_restr0.108
r_bond_refined_d0.019
r_gen_planes_refined0.01
r_gen_planes_other0.004
r_bond_other_d0.003
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms10676
Nucleic Acid Atoms
Solvent Atoms1490
Heterogen Atoms269

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling