X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.4298Tris buffer, Ammonium Sulfate, Glycerol, BeCl2, NaF, MnCl2, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
4.1370.21

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.491α = 90
b = 53.543β = 90
c = 161.568γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayIMAGE PLATERIGAKU RAXIS IV++2006-09-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R1.5418

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
1227.6797.60.05818.454431409
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)
122.0799.50.3333.83154

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 DIFFRACTIONTHROUGHOUT227.6731360159397.490.1640.1620.206RANDOM26.553
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]
0.320.33-0.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.968
r_dihedral_angle_3_deg13.383
r_dihedral_angle_4_deg6.318
r_dihedral_angle_1_deg5.732
r_scangle_it3.191
r_scbond_it2.281
r_angle_refined_deg1.47
r_mcangle_it1.168
r_mcbond_it1.002
r_angle_other_deg0.979
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.968
r_dihedral_angle_3_deg13.383
r_dihedral_angle_4_deg6.318
r_dihedral_angle_1_deg5.732
r_scangle_it3.191
r_scbond_it2.281
r_angle_refined_deg1.47
r_mcangle_it1.168
r_mcbond_it1.002
r_angle_other_deg0.979
r_symmetry_vdw_other0.274
r_symmetry_hbond_refined0.252
r_nbd_refined0.21
r_nbd_other0.191
r_mcbond_other0.18
r_nbtor_refined0.17
r_xyhbond_nbd_refined0.163
r_symmetry_vdw_refined0.129
r_chiral_restr0.096
r_nbtor_other0.086
r_metal_ion_refined0.017
r_bond_refined_d0.015
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1962
Nucleic Acid Atoms
Solvent Atoms388
Heterogen Atoms38

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction