X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION9.529830% PEG-3000, 100 mM CHES pH 9.5, 10 mM YCl3, 25 mM tris pH 7.5, 150 mM NaCl, temperature 298K, VAPOR DIFFUSION
Crystal Properties
Matthews coefficientSolvent content
2.0138.74

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.792α = 90
b = 67.469β = 90
c = 79.463γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2007-03-26SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-IDAPS22-ID

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
12.446.7399.414237141394.44.4
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.42.4999.1

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1KG02.446.73142371344562999.550.216660.215480.24226RANDOM37.86
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]
-3.99-2.346.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.37
r_dihedral_angle_4_deg38.216
r_dihedral_angle_3_deg19.621
r_dihedral_angle_1_deg7.13
r_scangle_it4.939
r_mcangle_it4.342
r_scbond_it3.308
r_mcbond_it2.778
r_angle_refined_deg1.708
r_mcbond_other0.794
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.37
r_dihedral_angle_4_deg38.216
r_dihedral_angle_3_deg19.621
r_dihedral_angle_1_deg7.13
r_scangle_it4.939
r_mcangle_it4.342
r_scbond_it3.308
r_mcbond_it2.778
r_angle_refined_deg1.708
r_mcbond_other0.794
r_symmetry_vdw_refined0.225
r_xyhbond_nbd_refined0.215
r_symmetry_vdw_other0.202
r_nbtor_refined0.183
r_nbd_other0.18
r_symmetry_hbond_refined0.168
r_nbd_refined0.163
r_nbtor_other0.159
r_chiral_restr0.116
r_bond_refined_d0.026
r_gen_planes_refined0.009
r_gen_planes_other0.005
r_bond_other_d
r_angle_other_deg
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 Atoms2318
Nucleic Acid Atoms
Solvent Atoms281
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling