1FX5
CRYSTAL STRUCTURE ANALYSIS OF ULEX EUROPAEUS LECTIN I
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1LEC | Griffonia simplicifolia lectin IV, 1LEC |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP | 4 | 287 | R,S-2-methyl-2,4-pentanediol, sodium acetate, MnCl2, CaCl2, sodium cacodylate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 287.0K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.06 | 59.75 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 79.61 | α = 90 |
b = 70.67 | β = 108.6 |
c = 122.15 | γ = 90 |
Symmetry | |
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Space Group | C 1 2 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 | 287 | DIFFRACTOMETER | ENRAF-NONIUS FAST | 1994-02-07 | M | SINGLE WAVELENGTH | ||||||
2 | 1 | 287 | DIFFRACTOMETER | ENRAF-NONIUS FAST | 1994-07-26 | |||||||||
3 | 1 | 287 | DIFFRACTOMETER | ENRAF-NONIUS FAST | 1995-03-28 |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | ROTATING ANODE | ENRAF-NONIUS FR571 | |||
2 | ROTATING ANODE | ENRAF-NONIUS FR571 | |||
3 | ROTATING ANODE | ENRAF-NONIUS FR571 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge 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 | 2.2 | 40 | 89.2 | 0.056 | 9.5 | 2.1 | 29087 | 29087 | 2 | 22.5 |
Highest Resolution Shell | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||||
1 | 2.2 | 2.32 | 63.6 | 0.105 | 1.2 | 3015 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | ||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | Griffonia simplicifolia lectin IV, 1LEC | 2.2 | 40 | 29087 | 29087 | 2898 | 89.2 | 0.171 | 0.171 | 0.171 | 0.217 | RANDOM |
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 | |
---|---|
Key | Refinement Restraint Deviation |
x_torsion_deg | 26.5 |
x_angle_deg | 1.738 |
x_torsion_impr_deg | 1.527 |
x_bond_d | 0.011 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 3695 |
Nucleic Acid Atoms | |
Solvent Atoms | 194 |
Heterogen Atoms | 176 |
Software
Software | |
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Software Name | Purpose |
MADNESS | data collection |
TRUNCATE | data reduction |
AMoRE | phasing |
X-PLOR | refinement |
MADNESS | data reduction |
CCP4 | data scaling |