2EU8
Crystal structure of a thermostable mutant of Bacillus subtilis Adenylate Kinase (Q199R)
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1ZIN | PDB ENTRY 1ZIN |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 9 | 293.14 | 0.75mM protein, PEG1500, Calcium Chloride, Ches, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.14K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.063 | 38.07 |
Crystal Data
Unit Cell | |
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Length ( ? ) | Angle ( ? ) |
a = 34.69 | ¦Á = 90 |
b = 75.14 | ¦Â = 98.13 |
c = 77.35 | ¦Ã = 90 |
Symmetry | |
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Space Group | P 1 21 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 | 100 | IMAGE PLATE | RIGAKU RAXIS IV | 2005-01-10 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | ROTATING ANODE | RIGAKU | 1.5418 |
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 | 1.6 | 37.57 | 94 | 0.036 | 21.7 | 3.84 | 48747 | 48747 | 1 | 1 |
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) | |||||||||||
1.6 | 1.66 | 80.4 | 80.4 | 0.096 | 8.7 | 3.47 | 4179 |
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-Factor (All) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | |||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | PDB ENTRY 1ZIN | 1.8 | 37.57 | 36475 | 35105 | 1747 | 96.2 | 0.19 | 0.2289 | 0.187 | 0.224 | RANDOM | 16.36 |
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] | |
-0.659 | -1.769 | -0.313 | 0.972 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
c_dihedral_angle_d | 20.40305 |
c_angle_deg | 1.23454 |
c_improper_angle_d | 0.87924 |
c_bond_d | 0.004967 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 3366 |
Nucleic Acid Atoms | |
Solvent Atoms | 657 |
Heterogen Atoms | 119 |
Software
Software | |
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Software Name | Purpose |
d*TREK | data scaling |
CNS | refinement |
PDB_EXTRACT | data extraction |
CrystalClear | data reduction |
CNS | phasing |