4BCU

Satellite Tobacco Necrosis Virus (STNV) virus like particle in complex with the B3 aptamer


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.5pH 6.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 315.02α = 90
b = 300.55β = 94.37
c = 183.51γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I02DiamondI02

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
12.2921799.60.089.35.5756410
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)
12.292.3599.20.393.33.8

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 DIFFRACTIONOTHERTHROUGHOUTNONE2.29217.157184743793699.580.157290.155120.19821RANDOM18.402
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]
0.03-0.07-0.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg45.017
r_dihedral_angle_3_deg14.796
r_dihedral_angle_1_deg7.294
r_scangle_it5.082
r_scbond_it3.327
r_angle_refined_deg1.756
r_mcangle_it1.714
r_mcbond_it0.96
r_bond_refined_d0.023
r_bond_other_d
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg45.017
r_dihedral_angle_3_deg14.796
r_dihedral_angle_1_deg7.294
r_scangle_it5.082
r_scbond_it3.327
r_angle_refined_deg1.756
r_mcangle_it1.714
r_mcbond_it0.96
r_bond_refined_d0.023
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_4_deg
r_chiral_restr
r_gen_planes_refined
r_gen_planes_other
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_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1457
Nucleic Acid Atoms
Solvent Atoms220
Heterogen Atoms2

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling