4PAE

Crystal structure of catalase-peroxidase (KatG) W78F mutant from Synechococcus elongatus PCC7942


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.3277SODIUM FORMATE
Crystal Properties
Matthews coefficientSolvent content
3.766.79

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 107.673α = 90
b = 107.673β = 90
c = 204.788γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX-2252013-12-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL44XU0.900SPring-8BL44XU

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
13.2065099.80.1518.75.220400
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.2063.3199.8

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 DIFFRACTIONTHROUGHOUT3.20642.2719354104699.540.183870.179930.25956RANDOM73.069
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.412
r_dihedral_angle_3_deg18.521
r_dihedral_angle_4_deg17.106
r_long_range_B_refined10.825
r_long_range_B_other10.817
r_scangle_other7.511
r_mcangle_other7.329
r_mcangle_it7.328
r_dihedral_angle_1_deg6.957
r_mcbond_it4.723
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.412
r_dihedral_angle_3_deg18.521
r_dihedral_angle_4_deg17.106
r_long_range_B_refined10.825
r_long_range_B_other10.817
r_scangle_other7.511
r_mcangle_other7.329
r_mcangle_it7.328
r_dihedral_angle_1_deg6.957
r_mcbond_it4.723
r_mcbond_other4.712
r_scbond_it4.651
r_scbond_other4.65
r_angle_refined_deg1.525
r_angle_other_deg0.836
r_chiral_restr0.079
r_bond_refined_d0.011
r_gen_planes_refined0.007
r_gen_planes_other0.004
r_bond_other_d0.001
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5555
Nucleic Acid Atoms
Solvent Atoms46
Heterogen Atoms55

Software

Software
Software NamePurpose
REFMACrefinement