1XQN
The 15k neutron structure of saccharide-free concanavalin A
NEUTRON DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | BATCH DIALYSIS | 6.5 | 293 | 0.1M NaNO3, 0.05M Tris-acetate, 1mM MnCl2, 1mM CaCl2 (all in D2O), pH 6.50, BATCH DIALYSIS, temperature 293.0K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.4 | 48.3 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 89.16 | α = 90 |
b = 86.129 | β = 90 |
c = 61.594 | γ = 90 |
Symmetry | |
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Space Group | I 2 2 2 |
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 | neutron | 15 | IMAGE PLATE | 2000-11-16 | L | QUASI LAUE |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | 2.8-3.8 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (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 | 2.5 | 32.82 | 74.4 | 0.235 | 0.235 | 5.6 | 4.7 | 6462 | 6339 | 2 | 23.8 |
Highest Resolution Shell | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | R-Sym I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | ||||||||||
2.5 | 2.64 | 54.2 | 0.358 | 0.358 | 2.3 | 2.6 | 651 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Cut-off Sigma (F) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | ||||
NEUTRON DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | 1.65A X-ray model of D20-grown saccharide-free concacanavalin A at 100K | 2.5 | 32.82 | 2 | 6462 | 6339 | 331 | 74.4 | 0.266 | 0.266 | 0.32 | RANDOM | 24.9 |
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] | |
-7.8 | 12.54 | -4.74 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
c_dihedral_angle_d | 17.7 |
c_improper_angle_d | 7.31 |
c_mcangle_it | 2.09 |
c_scangle_it | 1.68 |
c_angle_deg | 1.6 |
c_mcbond_it | 1.2 |
c_scbond_it | 1.09 |
c_bond_d | 0.006 |
c_bond_d_na | |
c_bond_d_prot |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 3564 |
Nucleic Acid Atoms | |
Solvent Atoms | 561 |
Heterogen Atoms | 2 |
Software
Software | |
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Software Name | Purpose |
LAUEGEN/LSCALE | data collection |
SCALA | data reduction |
CNS | refinement |
LAUEGEN/LSCALE | data reduction |
CCP4 | data scaling |
CNS | phasing |