X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION8.5294100mM Tris pH 8.5, 2M ammonium phosphate, VAPOR DIFFUSION, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
2.0339.49

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.677α = 90
b = 58.006β = 108.85
c = 53.561γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77IMAGE PLATERIGAKU RAXIS IVOsmic mirrors2006-08-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU3001.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
11.92098.30.0730.07323.87.82281822430
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.9784.80.4810.4812.85.41913

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 REPLACEMENTTHROUGHOUTPDB entry 1XKF1.920228162240872298.210.1760.1740.234RANDOM26.349
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]
-0.590.610.260.73
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.633
r_dihedral_angle_4_deg14.106
r_dihedral_angle_3_deg12.293
r_dihedral_angle_1_deg5.06
r_scangle_it4.119
r_scbond_it2.663
r_mcangle_it1.771
r_angle_refined_deg1.36
r_mcbond_it1.189
r_nbtor_refined0.301
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.633
r_dihedral_angle_4_deg14.106
r_dihedral_angle_3_deg12.293
r_dihedral_angle_1_deg5.06
r_scangle_it4.119
r_scbond_it2.663
r_mcangle_it1.771
r_angle_refined_deg1.36
r_mcbond_it1.189
r_nbtor_refined0.301
r_symmetry_hbond_refined0.259
r_nbd_refined0.212
r_symmetry_vdw_refined0.196
r_xyhbond_nbd_refined0.171
r_chiral_restr0.092
r_bond_refined_d0.015
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2078
Nucleic Acid Atoms
Solvent Atoms225
Heterogen Atoms35

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing