3UC3

The crystal structure of Snf1-related kinase 2.3


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION6.5298PEG 8000, ammonium sulfate, pH 6.5, vapor diffusion, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.3347.19

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 75.411α = 90
b = 75.411β = 90
c = 116.434γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2010-07-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-D1.0APS21-ID-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.93092.8307612
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.97100

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.928.4828568219399.910.21370.21240.2297RANDOM31.7002
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]
-1.11-0.56-1.111.67
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.615
r_dihedral_angle_4_deg17.174
r_dihedral_angle_3_deg12.714
r_sphericity_free8.515
r_dihedral_angle_1_deg4.775
r_sphericity_bonded4.053
r_scangle_it3.267
r_scbond_it1.997
r_mcangle_it1.735
r_rigid_bond_restr1.187
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.615
r_dihedral_angle_4_deg17.174
r_dihedral_angle_3_deg12.714
r_sphericity_free8.515
r_dihedral_angle_1_deg4.775
r_sphericity_bonded4.053
r_scangle_it3.267
r_scbond_it1.997
r_mcangle_it1.735
r_rigid_bond_restr1.187
r_angle_refined_deg1.065
r_mcbond_it0.955
r_angle_other_deg0.767
r_mcbond_other0.235
r_chiral_restr0.065
r_bond_refined_d0.008
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2187
Nucleic Acid Atoms
Solvent Atoms143
Heterogen Atoms3

Software

Software
Software NamePurpose
DENZOdata reduction
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
SCALEPACKdata scaling