3F51
Crystal Structure of the clp gene regulator ClgR from Corynebacterium glutamicum
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP | 4.6 | 298 | 0.1 M sodium chloride, 23% 2-methyl-2,4-pentanediol, 15% glycerol, 0.085 M sodium acetate , pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
2 | VAPOR DIFFUSION, SITTING DROP | 4.6 | 298 | 0.0085 M cobalt chloride, 0.85 M 1,6-hexanediol, 15% glycerol, 0.085 M sodium acetate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 65.44 | α = 90 |
b = 84.82 | β = 95.87 |
c = 71.43 | γ = 90 |
Symmetry | |
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Space Group | P 1 21 1 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 100 | PIXEL | PHILLIPS | 2007-11-09 | M | SINGLE WAVELENGTH | ||||||
2 | 1 | x-ray | 100 | M | MAD |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | SLS BEAMLINE X06SA | 1.000 | SLS | X06SA |
2 | SYNCHROTRON | SLS BEAMLINE X06SA | 0.9790,0.9793,0.9717 | SLS | X06SA |
Data Collection
Overall | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Sym 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 | 2.05 | 46 | 99.7 | 0.052 | 16 | 3.7 | 48793 | 48625 | 1.7 | 3 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R-Sym I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||||
2.05 | 2.15 | 99.8 | 0.699 | 2.8 | 3.7 | 6411 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Cut-off Sigma (I) | Cut-off Sigma (F) | Number Reflections (All) | 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 | MAD | THROUGHOUT | 2.05 | 45.74 | 3 | 1.7 | 46193 | 46193 | 2432 | 100 | 0.21359 | 0.21234 | 0.23801 | RANDOM | 46.438 |
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] | |
0.03 | -1.89 | -0.44 | 0.02 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 33.557 |
r_dihedral_angle_4_deg | 21.781 |
r_dihedral_angle_3_deg | 16.856 |
r_scangle_it | 5.028 |
r_dihedral_angle_1_deg | 4.599 |
r_scbond_it | 3.13 |
r_mcangle_it | 1.658 |
r_angle_refined_deg | 1.465 |
r_mcbond_it | 1.044 |
r_nbtor_refined | 0.301 |
Non-Hydrogen Atoms Used in Refinement | |
---|---|
Non-Hydrogen Atoms | Number |
Protein Atoms | 4073 |
Nucleic Acid Atoms | |
Solvent Atoms | 212 |
Heterogen Atoms | 4 |
Software
Software | |
---|---|
Software Name | Purpose |
RemDAq | data collection |
SHARP | phasing |
REFMAC | refinement |
XDS | data reduction |
XSCALE | data scaling |