X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2JKF2JKF without residues 57-77

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP62892.4 M ammonium sulfate, 0.1 M sodium citrate, 0.2 M potassium/sodium tartrate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 289.0K
Crystal Properties
Matthews coefficientSolvent content
2.2344.72

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.528α = 74.7
b = 53.335β = 73.82
c = 68.617γ = 68.98
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315Meridionally-bent fused silica mirror with palladium and uncoated stripes vertically-focusing at 6.6:1 demagnification.2009-02-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X250.979NSLSX25

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
11.727940.07317.183.86120319
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)
1.71.7669.90.4133.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2JKF without residues 57-771.726.361203281494.010.15870.19618RANDOM26.258
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]
0.020.27-0.10.03-0.04-0.17
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.983
r_dihedral_angle_4_deg15.59
r_dihedral_angle_3_deg12.016
r_scangle_it10.768
r_scbond_it7.634
r_dihedral_angle_1_deg5.656
r_mcangle_it3.633
r_mcbond_it2.336
r_angle_refined_deg1.168
r_chiral_restr0.088
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.983
r_dihedral_angle_4_deg15.59
r_dihedral_angle_3_deg12.016
r_scangle_it10.768
r_scbond_it7.634
r_dihedral_angle_1_deg5.656
r_mcangle_it3.633
r_mcbond_it2.336
r_angle_refined_deg1.168
r_chiral_restr0.088
r_bond_refined_d0.011
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4974
Nucleic Acid Atoms
Solvent Atoms753
Heterogen Atoms52

Software

Software
Software NamePurpose
CBASSdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling