X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5X0B 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.9293PEG 3350, serine
Crystal Properties
Matthews coefficientSolvent content
2.2344.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 39.903α = 90
b = 70.032β = 90
c = 88.381γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 4M2015-11-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE BL-1A1.100Photon FactoryBL-1A

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
11.765097.713.45.324624

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT5X0B1.765023360124097.550.224960.223010.26097RANDOM26.784
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]
-0.57-0.410.98
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.938
r_dihedral_angle_3_deg12.522
r_dihedral_angle_4_deg12.506
r_dihedral_angle_1_deg7.025
r_long_range_B_refined3.843
r_long_range_B_other3.775
r_angle_refined_deg1.541
r_angle_other_deg0.917
r_scangle_other0.438
r_mcangle_it0.392
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.938
r_dihedral_angle_3_deg12.522
r_dihedral_angle_4_deg12.506
r_dihedral_angle_1_deg7.025
r_long_range_B_refined3.843
r_long_range_B_other3.775
r_angle_refined_deg1.541
r_angle_other_deg0.917
r_scangle_other0.438
r_mcangle_it0.392
r_mcangle_other0.392
r_scbond_it0.267
r_scbond_other0.267
r_mcbond_it0.218
r_mcbond_other0.218
r_chiral_restr0.09
r_bond_refined_d0.011
r_gen_planes_refined0.007
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 Atoms1839
Nucleic Acid Atoms
Solvent Atoms123
Heterogen Atoms23

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
REFMACphasing