X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP | 5.5 | 294 | The purified protein was concentrated to 10-20 mg/ml and buffer exchanged into 25 mM Tris-HCl, pH 8.0, 30-50 mM NaCl, 25 mM sodium citrate. DMO crystals were grown using the vapor diffusion by sitting drop method, with a reservoir solution of 8-11% PEG 6000, 100 mM sodium acetate buffer pH 5.5, 1 M LiCl, and 4 uL droplets of varying protein-to-precipitant ratios., VAPOR DIFFUSION, SITTING DROP, temperature 294K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.6 | 52.72 |
Crystal Data
Unit Cell | |
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Length ( ? ) | Angle ( ? ) |
a = 81.11 | ¦Á = 90 |
b = 81.11 | ¦Â = 90 |
c = 158.81 | ¦Ã = 120 |
Symmetry | |
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Space Group | P 32 |
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 300 mm CCD | 2005-06-29 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | APS BEAMLINE 22-ID | 1.000 | APS | 22-ID |
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 | 1.95 | 36.12 | 96.3 | 0.067 | 31.4 | 6.7 | 84535 | 81407 |
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) | |||||||||||
1.95 | 2.02 | 92 | 0.467 | 2.64 | 6.9 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Work (Depositor) | R-Work (DCC) | R-Free (Depositor) | R-Free (DCC) | R-Free Selection Details | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | MR WAS PERFORMED USING A PRELIMINARY DMO STRUCTURE. THIS EARLY DMO STRUCTURE WAS OBTAINED LARGELY USING A HIGH-REDUNDANCY, 1.5418 A WAVELENGTH DATA SET FOR FE SINGLE ANOMALOUS DISPERSION (SAD) PHASING, WITH ASSISTANCE FROM THE SULFUR ANOMALOUS SIGNAL IN A HIGH-REDUNDANCY, 2.29 A WAVELENGTH DATA SET. | THROUGHOUT | 1.95 | 20 | 71130 | 7209 | 83.6 | 0.2349 | 0.22 | 0.2617 | 0.24 | random | 41.483 |
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] | |
-0.125 | 0.3 | -0.125 | 0.25 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
c_scangle_it | 2.577 |
c_mcangle_it | 2.071 |
c_scbond_it | 1.771 |
c_angle_deg | 1.3 |
c_mcbond_it | 1.292 |
c_bond_d | 0.005 |
c_bond_d_na | |
c_bond_d_prot | |
c_angle_d | |
c_angle_d_na |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 7855 |
Nucleic Acid Atoms | |
Solvent Atoms | 530 |
Heterogen Atoms | 30 |
Software
Software | |
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Software Name | Purpose |
SERGUI | data collection |
PHASER | phasing |
CNX | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |