X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.52932.1 M Sodium Formate 100 mM Sodium Citrate
Crystal Properties
Matthews coefficientSolvent content
3.0759.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.757α = 90
b = 88.757β = 90
c = 185.141γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2702011-12-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X6A1.0000NSLSX6A

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
12.276.9899.530.07637.410.94356966.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.2499.81.811

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 REPLACEMENTTHROUGHOUT3IBF2.276.9839208429899.530.19480.19120.2279RANDOM66.342
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]
1.540.771.54-4.99
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.853
r_dihedral_angle_4_deg19.119
r_dihedral_angle_3_deg15.154
r_dihedral_angle_1_deg6.238
r_mcangle_it4.433
r_mcbond_other3.356
r_mcbond_it3.346
r_angle_refined_deg1.769
r_angle_other_deg1.15
r_chiral_restr0.101
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.853
r_dihedral_angle_4_deg19.119
r_dihedral_angle_3_deg15.154
r_dihedral_angle_1_deg6.238
r_mcangle_it4.433
r_mcbond_other3.356
r_mcbond_it3.346
r_angle_refined_deg1.769
r_angle_other_deg1.15
r_chiral_restr0.101
r_bond_refined_d0.017
r_gen_planes_refined0.009
r_bond_other_d0.005
r_gen_planes_other0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3734
Nucleic Acid Atoms
Solvent Atoms92
Heterogen Atoms9

Software

Software
Software NamePurpose
HKL-2000data reduction
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing