X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HWXPDB ENTRY 2HWX,PEB3 citrate bound form

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.529418% [w/v] polyethylene glycol 3350, 0.2 M ammonium acetate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
2.244.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 62.231α = 90
b = 79.239β = 90
c = 99.046γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHVertical and Horizontal focusing Mirrors2008-03-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID0.98APS31-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
11.743.91000.08311.67.25464817
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)
1.71.7999.90.2660.2877.777879

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 2HWX,PEB3 citrate bound form1.743.951857272599.960.219970.218790.24246RANDOM13.756
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]
-0.410.30.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.928
r_dihedral_angle_3_deg12.758
r_dihedral_angle_4_deg11.05
r_dihedral_angle_1_deg4.534
r_scangle_it0.974
r_angle_refined_deg0.821
r_scbond_it0.556
r_mcangle_it0.411
r_mcbond_it0.214
r_chiral_restr0.062
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.928
r_dihedral_angle_3_deg12.758
r_dihedral_angle_4_deg11.05
r_dihedral_angle_1_deg4.534
r_scangle_it0.974
r_angle_refined_deg0.821
r_scbond_it0.556
r_mcangle_it0.411
r_mcbond_it0.214
r_chiral_restr0.062
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 Atoms400
Heterogen Atoms20

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
d*TREKdata reduction
SCALAdata scaling