3WXO

Crystal structure of isoniazid bound KatG catalase peroxidase from Synechococcus elongatus PCC7942


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.3277Sodium formate, pH6.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.7867.48

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 108.654α = 90
b = 108.654β = 90
c = 202.891γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152013-06-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL38B11.0SPring-8BL38B1

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
12.125095.20.089.9469586
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)
12.122.297.30.5153.912883

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 DIFFRACTIONMIRTHROUGHOUT2.1235.0965956335694.790.15950.15750.1969RANDOM37.767
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_deg34.629
r_dihedral_angle_4_deg18.615
r_dihedral_angle_3_deg16.113
r_dihedral_angle_1_deg6.463
r_mcangle_it4.6
r_mcbond_it3.431
r_mcbond_other3.43
r_angle_refined_deg1.95
r_angle_other_deg0.961
r_chiral_restr0.137
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.629
r_dihedral_angle_4_deg18.615
r_dihedral_angle_3_deg16.113
r_dihedral_angle_1_deg6.463
r_mcangle_it4.6
r_mcbond_it3.431
r_mcbond_other3.43
r_angle_refined_deg1.95
r_angle_other_deg0.961
r_chiral_restr0.137
r_bond_refined_d0.02
r_gen_planes_refined0.012
r_gen_planes_other0.007
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5582
Nucleic Acid Atoms
Solvent Atoms487
Heterogen Atoms77

Software

Software
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing