X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3EU5 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.529220% (w/v) PEG 4000, 0.2M MgCl2, 0.1M Tris, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties
Matthews coefficientSolvent content
3.2662.26

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 172.397α = 90
b = 172.397β = 90
c = 69.781γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2009-11-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.0000SLSX10SA

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
12.629.9199.90.08216.35.6366613661143.2
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.62.799.90.3815.35.5

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3EU52.629.913666134781180999.890.173830.171230.22269RANDOM37.122
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]
1.290.641.29-1.93
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.505
r_dihedral_angle_4_deg20.283
r_dihedral_angle_3_deg17.653
r_dihedral_angle_1_deg5.99
r_scangle_it4.728
r_angle_other_deg4.093
r_scbond_it3.095
r_mcangle_it2.157
r_mcbond_other1.622
r_angle_refined_deg1.603
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.505
r_dihedral_angle_4_deg20.283
r_dihedral_angle_3_deg17.653
r_dihedral_angle_1_deg5.99
r_scangle_it4.728
r_angle_other_deg4.093
r_scbond_it3.095
r_mcangle_it2.157
r_mcbond_other1.622
r_angle_refined_deg1.603
r_mcbond_it1.263
r_symmetry_vdw_other0.379
r_symmetry_vdw_refined0.359
r_nbd_refined0.306
r_nbd_other0.273
r_symmetry_hbond_refined0.23
r_xyhbond_nbd_refined0.206
r_nbtor_refined0.196
r_nbtor_other0.109
r_chiral_restr0.09
r_bond_refined_d0.017
r_gen_planes_other0.007
r_gen_planes_refined0.006
r_bond_other_d
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5824
Nucleic Acid Atoms
Solvent Atoms244
Heterogen Atoms74

Software

Software
Software NamePurpose
MOSFLMdata reduction
PHASESphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling