X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.52910.2 M sodium acetate trihydrate, 0.1M TRIS Hcl pH 8.5 and 30% w/v PEG4000, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.5752.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58α = 90
b = 78.3β = 90
c = 247.34γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2011-07-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL7-10.97SSRLBL7-1

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
12.8247.3490.70.1310.1314.74.32873925912
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)
12.82.953.20.6030.6031.33.211293

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 REPLACEMENTTHROUGHOUT3IBD2.882.452729524667130590.370.244810.244810.242140.29414RANDOM50.498
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]
6.88-3.28-3.6
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.053
r_dihedral_angle_3_deg19.398
r_dihedral_angle_4_deg18.344
r_dihedral_angle_1_deg5.601
r_scangle_it2.366
r_angle_refined_deg1.43
r_scbond_it1.326
r_mcangle_it1.007
r_mcbond_it0.516
r_chiral_restr0.154
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.053
r_dihedral_angle_3_deg19.398
r_dihedral_angle_4_deg18.344
r_dihedral_angle_1_deg5.601
r_scangle_it2.366
r_angle_refined_deg1.43
r_scbond_it1.326
r_mcangle_it1.007
r_mcbond_it0.516
r_chiral_restr0.154
r_bond_refined_d0.012
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7379
Nucleic Acid Atoms
Solvent Atoms78
Heterogen Atoms198

Software

Software
Software NamePurpose
Blu-Icedata collection
BALBESphasing
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling