X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HXWPDB ENTRY 2hxw, PDB ENTRY peb3

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.529418% [w/v] polyethylene glycol 3350, 0.2 M sodium phosphate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
2.2244.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 62.417α = 90
b = 79.965β = 90
c = 98.392γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHVertical and Horizontal focusing Mirrors2008-08-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-IDAPS31-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.618.7980.06715.86.66509415
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)
1.61.6997.70.2590.2778.16.19228

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 2hxw, PDB ENTRY peb31.618.761746326199.050.217410.216670.23128RANDOM13.385
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]
-0.560.63-0.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.333
r_dihedral_angle_3_deg12.416
r_dihedral_angle_4_deg9.981
r_dihedral_angle_1_deg4.534
r_scangle_it0.902
r_angle_refined_deg0.798
r_scbond_it0.523
r_mcangle_it0.405
r_mcbond_it0.212
r_chiral_restr0.064
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.333
r_dihedral_angle_3_deg12.416
r_dihedral_angle_4_deg9.981
r_dihedral_angle_1_deg4.534
r_scangle_it0.902
r_angle_refined_deg0.798
r_scbond_it0.523
r_mcangle_it0.405
r_mcbond_it0.212
r_chiral_restr0.064
r_bond_refined_d0.003
r_gen_planes_refined0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3622
Nucleic Acid Atoms
Solvent Atoms355
Heterogen Atoms10

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
d*TREKdata reduction
SCALAdata scaling