4G0R
Structural characterization of H-1 Parvovirus: comparison of infectious virions to replication defective particles
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 7.5 | 298 | The reservoir solution contained 1-3% (w/v) polyethylene glycol 8000 (PEG 8000), 150 mM NaCl, and 8mM CaCl2.2H2O as precipitants in 10 mM Tris. The drops were prepared by mixing equivolume of virus solution (10mg/ml) in Tris-HCl Buffer (10 mM Tris-HCl, 150 mM NaCl, 8mM CaCl2.2H2O) with reservoir solution, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 255.4 | α = 90 |
b = 350.4 | β = 90.34 |
c = 271.6 | γ = 90 |
Symmetry | |
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Space Group | P 1 21 1 |
Diffraction
Diffraction Experiment | ||||||||||||||
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ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 277 | CCD | ADSC QUANTUM 270 | mirror | 2010-06-04 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | CHESS BEAMLINE F1 | 0.9186 | CHESS | F1 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Sym I (Observed) | Net I Over Average Sigma (I) | Redundancy | Number Reflections (All) | Number Reflections (Observed) | Observed Criterion Sigma (F) | Observed Criterion Sigma (I) | B (Isotropic) From Wilson Plot | ||||||||
1 | 2.7 | 50 | 93.1 | 0.132 | 6.8 | 2.6 | 1210268 | 1127217 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R-Sym I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||||
1 | 2.7 | 2.8 | 94.7 | 0.378 | 2.4 | 2.4 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Resolution (High) | Resolution (Low) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Work | R-Free | Mean Isotropic B | |||||||||||
X-RAY DIFFRACTION | 2.7 | 50 | 56289 | 86.7 | 0.216 | 0.2169 | 33.126 |
Temperature Factor Modeling | ||||||
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Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
-3.118 | 1.62 | 1.979 | 1.139 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
c_scangle_it | 3.164 |
c_scbond_it | 2.036 |
c_mcangle_it | 1.991 |
c_angle_d | 1.365 |
c_mcbond_it | 1.141 |
c_bond_d | 0.006 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 4375 |
Nucleic Acid Atoms | 194 |
Solvent Atoms | 131 |
Heterogen Atoms | 40 |
Software
Software | |
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Software Name | Purpose |
HKL-2000 | data collection |
AMoRE | phasing |
CNS | refinement |
HKL-2000 | data reduction |
SCALEPACK | data scaling |