X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3L8W 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.5291MIXING TWO SOLUTIONS A AND B: SOLUTION A: PROTEIN AT 20MG/ML IN 50MM TRIS-ACETATE BUFFER, + 0.3M SODIUM AZIDE SATURATED BY URIC ACID (IN PRESENCE OF THE SOLID), PH 8.5 SOLUTION B: PEG-8000 18% IN TRIS BUFFER, BATCH METHOD, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.8157.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.524α = 90
b = 95.24β = 90
c = 104.577γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MBENT MIRROR2014-01-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-1ESRFID23-1

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
11.0547.699.30.0684.41489092
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)
11.051.1254.80.32523.15

Refinement

Statistics
Diffraction IDStructure Solution MethodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONFOURIER SYNTHESIS3L8W1.0747417250014890985.70.1850.185
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]
Coordinate Error
Structure Solution MethodRefinement High ResolutionRefinement Low Resolution
422992669.5
RMS Deviations
KeyRefinement Restraint Deviation
s_from_restr_planes0.406
s_non_zero_chiral_vol0.092
s_approx_iso_adps0.088
s_anti_bump_dis_restr0.082
s_angle_d0.076
s_zero_chiral_vol0.075
s_similar_adp_cmpnt0.038
s_bond_d0.03
s_similar_dist
s_rigid_bond_adp_cmpnt
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2362
Nucleic Acid Atoms
Solvent Atoms308
Heterogen Atoms7

Software

Software
Software NamePurpose
DNAdata collection
SHELXmodel building
SHELXL-97refinement
XDSdata reduction
SCALAdata scaling
TRUNCATEdata scaling
SHELXphasing