2X3V
Structure of The F-BAR Domain of Mouse Syndapin I
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 5.5 | 2UL SYNDAPIN-I/EHD-1(401 -534)(25MG/ML IN 50MM HEPES,200MM NACL) MIXED WITH WELL SOLUTION 0.1M SODIUM CITRATE BUFFER (PH5.5),0.2M NAAC,10%(W/V) PEG4000. ONLY F-BAR DOMAIN OF SYDAPIN I CRYSTALLIZED. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.1 | 60 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 85.06 | α = 90 |
b = 153.49 | β = 90 |
c = 213.29 | γ = 90 |
Symmetry | |
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Space Group | C 2 2 21 |
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 | 100 | CCD | MARMOSAIC 225 mm CCD | DOUBLE CRYSTAL MONOCHROMATOR WITH 2 SETS OF MIRRORS | 2009-08-15 | M | MAD |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | BESSY BEAMLINE 14.1 | BESSY | 14.1 |
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 | 2.45 | 76.75 | 97.2 | 0.08 | 16.35 | 6.69 | 50261 | -3 | 55.7 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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 | 2.45 | 2.55 | 81.8 | 0.84 | 1.84 | 3.96 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work (Depositor) | R-Work (DCC) | R-Free (Depositor) | R-Free (DCC) | R-Free Selection Details | Mean Isotropic B | ||||
X-RAY DIFFRACTION | MAD | THROUGHOUT | NONE | 2.45 | 76.7 | 47811 | 2448 | 100 | 0.21402 | 0.21152 | 0.22 | 0.26026 | 0.26 | RANDOM | 32.69 |
Temperature Factor Modeling | ||||||
---|---|---|---|---|---|---|
Anisotropic B[1][1] | Anisotropic B[2][2] | Anisotropic B[3][3] | ||||
0.71 | -5.65 | 4.94 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 34.023 |
r_dihedral_angle_3_deg | 16.901 |
r_dihedral_angle_4_deg | 13.428 |
r_dihedral_angle_1_deg | 4.53 |
r_scangle_it | 3.719 |
r_scbond_it | 2.605 |
r_mcangle_it | 1.667 |
r_mcbond_it | 1.354 |
r_angle_refined_deg | 0.929 |
r_angle_other_deg | 0.774 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 7261 |
Nucleic Acid Atoms | |
Solvent Atoms | 158 |
Heterogen Atoms |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
XDS | data reduction |
XDS | data scaling |
XPREP | phasing |
SHELXD | phasing |
SHELXE | phasing |