4DFL

Crystal structure of spleen tyrosine kinase complexed with a sulfonamidopyrazine piperidine inhibitor


X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.550.91

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.028α = 90
b = 85.004β = 90
c = 90.748γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PILATUS 6MDECTRISMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SASLSX06SA

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
11.9562.0299.60.05822265
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)
11.982.0498.40.7648.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONOTHERTHROUGHOUTNONE1.9862.022226520689148399.590.199210.196160.24304RANDOM49.82
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]
0.21-2.442.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.152
r_dihedral_angle_4_deg17.253
r_dihedral_angle_3_deg12.404
r_dihedral_angle_1_deg5.297
r_scangle_it3.591
r_scbond_it2.756
r_mcangle_it1.865
r_mcbond_it1.515
r_angle_refined_deg1.127
r_angle_other_deg0.747
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.152
r_dihedral_angle_4_deg17.253
r_dihedral_angle_3_deg12.404
r_dihedral_angle_1_deg5.297
r_scangle_it3.591
r_scbond_it2.756
r_mcangle_it1.865
r_mcbond_it1.515
r_angle_refined_deg1.127
r_angle_other_deg0.747
r_mcbond_other0.314
r_symmetry_hbond_refined0.279
r_symmetry_vdw_other0.22
r_symmetry_vdw_refined0.209
r_nbd_refined0.197
r_nbtor_refined0.181
r_nbd_other0.175
r_xyhbond_nbd_refined0.126
r_nbtor_other0.083
r_chiral_restr0.068
r_bond_refined_d0.009
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2140
Nucleic Acid Atoms
Solvent Atoms114
Heterogen Atoms37

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling