X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2QKRPDB entries 2QKR, 2H9V, 2F2U, 2EUE
experimental modelPDB 2H9VPDB entries 2QKR, 2H9V, 2F2U, 2EUE
experimental modelPDB 2F2UPDB entries 2QKR, 2H9V, 2F2U, 2EUE
experimental modelPDB 2EUEPDB entries 2QKR, 2H9V, 2F2U, 2EUE

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.427755% PEG 300, 0.25M NaCl, Na/K Phosphate pH 6.4, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.9157.68

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.846α = 90
b = 107.467β = 90
c = 111.872γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2007-12-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA0.97912SLSX10SA

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
12.340.45699.80.0840.08417.110.81909219054
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)
12.32.4299.10.8982.59.32722

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entries 2QKR, 2H9V, 2F2U, 2EUE2.334190531905398099.850.1880.1880.1840.25RANDOM44.156
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]
-2.352.8-0.45
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.339
r_dihedral_angle_4_deg25.939
r_dihedral_angle_3_deg15.097
r_scangle_it8.408
r_dihedral_angle_1_deg6.465
r_scbond_it6.184
r_mcangle_it3.771
r_mcbond_it2.266
r_angle_refined_deg1.472
r_angle_other_deg0.946
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.339
r_dihedral_angle_4_deg25.939
r_dihedral_angle_3_deg15.097
r_scangle_it8.408
r_dihedral_angle_1_deg6.465
r_scbond_it6.184
r_mcangle_it3.771
r_mcbond_it2.266
r_angle_refined_deg1.472
r_angle_other_deg0.946
r_mcbond_other0.592
r_chiral_restr0.091
r_bond_refined_d0.015
r_gen_planes_refined0.006
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2031
Nucleic Acid Atoms
Solvent Atoms69
Heterogen Atoms32

Software

Software
Software NamePurpose
SCALAdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
CrystalCleardata collection
MOSFLMdata reduction