X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1Sitting drop7.52773 micro liter of protein solution (20.5 mg/mL in 10 mM sodium phosphate buffer, pH 8.0) mixed with 3 micro liter crystallization solution (0.1 M HEPES-Na buffer, pH 7.5, 2% v/v polyethylene glycol 400, 2.0 M ammonium sulfate), Sitting drop, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.346.48

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.955α = 90
b = 94.692β = 90
c = 190.701γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS2007-06-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU2001.5418

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
12.0242.0285.70.1546.9954052
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)
12.022.0986.70.67399093

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUTPDB ENTRY 2AAL2.442.0254052276384.790.2040.20.279RANDOM16.043
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]
-0.840.550.29
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.608
r_dihedral_angle_4_deg19.104
r_dihedral_angle_3_deg16.526
r_dihedral_angle_1_deg5.92
r_scangle_it2.987
r_scbond_it1.832
r_angle_refined_deg1.493
r_mcangle_it1.065
r_mcbond_it0.616
r_nbtor_refined0.305
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.608
r_dihedral_angle_4_deg19.104
r_dihedral_angle_3_deg16.526
r_dihedral_angle_1_deg5.92
r_scangle_it2.987
r_scbond_it1.832
r_angle_refined_deg1.493
r_mcangle_it1.065
r_mcbond_it0.616
r_nbtor_refined0.305
r_nbd_refined0.209
r_symmetry_vdw_refined0.173
r_xyhbond_nbd_refined0.166
r_symmetry_hbond_refined0.132
r_chiral_restr0.093
r_bond_refined_d0.013
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11998
Nucleic Acid Atoms
Solvent Atoms995
Heterogen Atoms

Software

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