5SXQ

Crystal structure of B. pseudomallei KatG with isonicotinic acid hydrazide bound


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1MWV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP29316-20% PEG 4000, 20% MPD, 0.1 M sodium citrate pH 5.6, 25 mM NaCl
Crystal Properties
Matthews coefficientSolvent content
3.1160.48

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 100.069α = 90
b = 113.319β = 90
c = 174.64γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2009-07-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.97934CLSI08ID-1

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
12.195.0699.40.0949.94.2115660
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)
12.0992.2196.90.3723.816250

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1MWV2.120109936572499.380.15420.15240.1873RANDOM27.962
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]
-0.160.3-0.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.155
r_dihedral_angle_4_deg14.999
r_dihedral_angle_3_deg14.171
r_dihedral_angle_1_deg6.083
r_mcangle_it2.955
r_angle_refined_deg2.029
r_mcbond_it1.969
r_mcbond_other1.965
r_angle_other_deg1.229
r_chiral_restr0.138
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.155
r_dihedral_angle_4_deg14.999
r_dihedral_angle_3_deg14.171
r_dihedral_angle_1_deg6.083
r_mcangle_it2.955
r_angle_refined_deg2.029
r_mcbond_it1.969
r_mcbond_other1.965
r_angle_other_deg1.229
r_chiral_restr0.138
r_bond_refined_d0.025
r_gen_planes_refined0.013
r_gen_planes_other0.01
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11010
Nucleic Acid Atoms
Solvent Atoms1170
Heterogen Atoms144

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing