X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2W9I 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP27746% PEG200 (v/v) in 100 mM NaCl/1 mM MES, pH 6.5
Crystal Properties
Matthews coefficientSolvent content
3.9869.11

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 111.059α = 90
b = 111.059β = 90
c = 137.172γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2012-11-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.0000SLSX10SA

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
12.796.1898.90.1046.46.427016
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)
12.72.850.643

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 REPLACEMENTTHROUGHOUT2W9I2.796.1825658135698.540.194090.192540.22378RANDOM52.018
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]
-0.33-0.16-0.331.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.203
r_dihedral_angle_4_deg14.873
r_dihedral_angle_3_deg13.322
r_dihedral_angle_1_deg5.89
r_long_range_B_other4.692
r_long_range_B_refined4.69
r_scangle_other2.346
r_mcangle_other1.935
r_mcangle_it1.934
r_scbond_it1.46
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.203
r_dihedral_angle_4_deg14.873
r_dihedral_angle_3_deg13.322
r_dihedral_angle_1_deg5.89
r_long_range_B_other4.692
r_long_range_B_refined4.69
r_scangle_other2.346
r_mcangle_other1.935
r_mcangle_it1.934
r_scbond_it1.46
r_scbond_other1.4
r_angle_refined_deg1.201
r_mcbond_it1.162
r_mcbond_other1.157
r_angle_other_deg0.731
r_chiral_restr0.065
r_bond_refined_d0.007
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4179
Nucleic Acid Atoms
Solvent Atoms15
Heterogen Atoms194

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing