1SBF
SOYBEAN AGGLUTININ
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 7.2 | PROTEIN WAS CRYSTALLIZED USING 3 MICROLITERS OF LECTIN SOLUTION (34 MG/ML) AND 755 MICROMOLAR SUGAR IN 0.1 M HEPES, PH 7.2, 1MM CACL2, 1MM MNCL2, AND 0.15 M NACL, WHICH WERE MIXED WITH 3 MICROLITER OF PRECIPITANT SOLUTION (SAME BUFFER, EXCEPT THAT THE SALT CONCENTRATION WAS 0.5M |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.84 | 56.7 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 122.64 | α = 90 |
b = 122.64 | β = 90 |
c = 90.56 | γ = 90 |
Symmetry | |
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Space Group | I 41 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 | x-ray | 287 | AREA DETECTOR | SIEMENS | COLLIMATOR | 1995-10-03 | M |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | ROTATING ANODE | RIGAKU RUH2R |
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 | 2.42 | 25 | 91 | 0.0128 | 0.0128 | 13.9 | 4.74 | 12224 | 2 | 26.2 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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) | ||||||||||
1 | 2.42 | 2.77 | 85 | 0.02999 | 0.02999 | 3.7 | 3.92 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Work | R-Free | Mean Isotropic B | ||||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | PDB ENTRY 1SBA | 2.43 | 99 | 11777 | 11777 | 88 | 0.187 |
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 | |
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Key | Refinement Restraint Deviation |
t_dihedral_angle_d | 18.686 |
t_angle_deg | 1.946 |
t_nbd | 0.062 |
t_gen_planes | 0.024 |
t_trig_c_planes | 0.017 |
t_bond_d | 0.011 |
t_incorr_chiral_ct | |
t_pseud_angle | |
t_it |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 1707 |
Nucleic Acid Atoms | |
Solvent Atoms | 22 |
Heterogen Atoms | 27 |
Software
Software | |
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Software Name | Purpose |
AMoRE | phasing |
TNT | refinement |
XENGEN | data reduction |
XENGEN | data scaling |