5SXR

Crystal structure of B. pseudomallei KatG with NAD 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, 25 mM NaCl, 0.1 M sodium citrate, pH 5.6
Crystal Properties
Matthews coefficientSolvent content
3.1761.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 100.58α = 90
b = 114.92β = 90
c = 174.48γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2009-05-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.97949CLSI08ID-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
11.6995.9799.90.08410.35.1225305
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)
11.691.781000.372.1536718

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 REPLACEMENTTHROUGHOUT1MWV1.69202139841123699.890.14070.13940.1646RANDOM23.746
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]
-0.060.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.232
r_dihedral_angle_4_deg16.664
r_dihedral_angle_3_deg12.587
r_dihedral_angle_1_deg5.793
r_mcangle_it2.749
r_angle_refined_deg2.474
r_mcbond_it2.004
r_mcbond_other1.999
r_angle_other_deg1.371
r_chiral_restr0.163
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.232
r_dihedral_angle_4_deg16.664
r_dihedral_angle_3_deg12.587
r_dihedral_angle_1_deg5.793
r_mcangle_it2.749
r_angle_refined_deg2.474
r_mcbond_it2.004
r_mcbond_other1.999
r_angle_other_deg1.371
r_chiral_restr0.163
r_bond_refined_d0.029
r_gen_planes_refined0.017
r_gen_planes_other0.011
r_bond_other_d0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11014
Nucleic Acid Atoms
Solvent Atoms1576
Heterogen Atoms161

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing