X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ORV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP277Na citrate 0.46M
Crystal Properties
Matthews coefficientSolvent content
4.2170.76

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 148.159α = 90
b = 264.675β = 90
c = 268.937γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2017-05-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SA0.99996SLSX06SA

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
13.543.899.90.356.88.39133413
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.53.721000.742.588.47

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 REPLACEMENTTHROUGHOUT1ORV3.543.87126742667199.880.207930.205130.26205RANDOM72.258
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]
2.680.08-2.75
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.097
r_dihedral_angle_3_deg15.86
r_dihedral_angle_4_deg15.407
r_long_range_B_refined6.872
r_long_range_B_other6.872
r_dihedral_angle_1_deg6.701
r_mcangle_it4.661
r_mcangle_other4.661
r_scangle_other4.133
r_mcbond_it2.77
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.097
r_dihedral_angle_3_deg15.86
r_dihedral_angle_4_deg15.407
r_long_range_B_refined6.872
r_long_range_B_other6.872
r_dihedral_angle_1_deg6.701
r_mcangle_it4.661
r_mcangle_other4.661
r_scangle_other4.133
r_mcbond_it2.77
r_mcbond_other2.77
r_scbond_it2.347
r_scbond_other2.347
r_angle_refined_deg1.321
r_angle_other_deg0.909
r_chiral_restr0.075
r_bond_refined_d0.008
r_gen_planes_refined0.005
r_bond_other_d0.002
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 Atoms41090
Nucleic Acid Atoms
Solvent Atoms33
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing