3AOI
RNA polymerase-Gfh1 complex (Crystal type 2)
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 2O5I | PDB ENTRIES 2O5I, 3DXJ, 2F23, and 3AOH |
experimental model | PDB | 3DXJ | PDB ENTRIES 2O5I, 3DXJ, 2F23, and 3AOH |
experimental model | PDB | 2F23 | PDB ENTRIES 2O5I, 3DXJ, 2F23, and 3AOH |
experimental model | PDB | 3AOH | PDB ENTRIES 2O5I, 3DXJ, 2F23, and 3AOH |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP | 6.4 | 293 | 50mM Hepes-NaOH buffer (pH 6.4), 5.5% PEG 8000, 300mM LiCl, 10mM MgCl2, 1% dimethyl sulfoxide, 5mM taurine, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.49 | 64.78 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 189.23 | α = 90 |
b = 264.51 | β = 116.68 |
c = 193.93 | γ = 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 | PIXEL | PSI PILATUS 6M | 2008-09-29 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | SLS BEAMLINE X06SA | 0.9801 | SLS | X06SA |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (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 | 4.3 | 50 | 97.9 | 112834 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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 | R-Free | R-Free Selection Details | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | PDB ENTRIES 2O5I, 3DXJ, 2F23, and 3AOH | 4.3 | 47.57 | 112830 | 3392 | 97.6 | 0.317 | 0.317 | 0.338 | RANDOM | 160.4 |
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] | |
20.46 | 32.91 | -32.81 | 12.35 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
c_scangle_it | 41.47 |
c_mcangle_it | 38.87 |
c_scbond_it | 28.96 |
c_mcbond_it | 25.07 |
c_dihedral_angle_d | 24.6 |
c_angle_deg | 1.7 |
c_improper_angle_d | 1.43 |
c_bond_d | 0.01 |
c_bond_d_na | |
c_bond_d_prot |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 72811 |
Nucleic Acid Atoms | 829 |
Solvent Atoms | |
Heterogen Atoms | 6 |
Software
Software | |
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Software Name | Purpose |
PHASER | phasing |
CNS | refinement |
XDS | data reduction |
XDS | data scaling |