2VBE

Tailspike protein of bacteriophage Sf6


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5293VAPOR DIFFUSION HANGING DROP 20 DEG CELSIUS DROP: 3 UL RESERVOIR SNF 3 UL PROTEIN RESERVOIR: 0.1 M MES PH 6.5, 25% PEG 8000, 20 MM MNCL2 PROTEIN: 5MG/ML IN 10 MM SODIUM PHOSPHATE PH 7 CRYOCONDITION: 0.1 M MES PH 6.5, 25 % PEG 8000, 20 MM MNCL2
Crystal Properties
Matthews coefficientSolvent content
2.5351.03

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 95.91α = 90
b = 95.91β = 90
c = 182.6γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC CCDTOROIDAL MIRRORMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-4ESRFID14-4

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
11.9819.595.60.0511.12.239829
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)
11.982.0665.40.0882.1

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 DIFFRACTIONSADTHROUGHOUTNONE1.9819.539829210195.70.1190.1170.149RANDOM12.19
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7.012
r_scangle_it3.297
r_scbond_it2.103
r_angle_refined_deg1.433
r_mcangle_it1.239
r_angle_other_deg0.835
r_mcbond_it0.694
r_symmetry_vdw_other0.317
r_nbd_other0.259
r_symmetry_vdw_refined0.233
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7.012
r_scangle_it3.297
r_scbond_it2.103
r_angle_refined_deg1.433
r_mcangle_it1.239
r_angle_other_deg0.835
r_mcbond_it0.694
r_symmetry_vdw_other0.317
r_nbd_other0.259
r_symmetry_vdw_refined0.233
r_nbd_refined0.192
r_symmetry_hbond_refined0.18
r_xyhbond_nbd_refined0.142
r_chiral_restr0.093
r_nbtor_other0.082
r_bond_refined_d0.015
r_gen_planes_other0.009
r_gen_planes_refined0.008
r_bond_other_d0.002
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
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 Atoms3825
Nucleic Acid Atoms
Solvent Atoms627
Heterogen Atoms37

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
SOLVEphasing