X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5EIP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP829325% PEG3350, 8% Tacsimate
Crystal Properties
Matthews coefficientSolvent content
1.8433.21

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.105α = 90
b = 55.871β = 90
c = 104.541γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU2014-10-31MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRF BEAMLINE BL17U0.9792SSRFBL17U

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.5452.2793.9917.43.743899

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 REPLACEMENTTHROUGHOUT5EIP1.543041691220193.950.174470.171750.22461RANDOM27.292
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]
0.46-1.471.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg27.763
r_dihedral_angle_4_deg18.892
r_dihedral_angle_3_deg11.388
r_long_range_B_refined7.42
r_long_range_B_other7.336
r_dihedral_angle_1_deg6.889
r_scangle_other4.964
r_mcangle_it3.681
r_mcangle_other3.68
r_scbond_it3.394
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg27.763
r_dihedral_angle_4_deg18.892
r_dihedral_angle_3_deg11.388
r_long_range_B_refined7.42
r_long_range_B_other7.336
r_dihedral_angle_1_deg6.889
r_scangle_other4.964
r_mcangle_it3.681
r_mcangle_other3.68
r_scbond_it3.394
r_scbond_other3.393
r_mcbond_it2.516
r_mcbond_other2.506
r_angle_refined_deg1.848
r_angle_other_deg1.323
r_chiral_restr0.127
r_bond_refined_d0.019
r_gen_planes_refined0.011
r_bond_other_d0.002
r_gen_planes_other0.002
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 Atoms2528
Nucleic Acid Atoms334
Solvent Atoms365
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
Cootdata reduction
HKL-2000data scaling
PHASERphasing