2A7K
carboxymethylproline synthase (CarB) from pectobacterium carotovora, apo enzyme
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 7.5 | 291 | PEG 400, MgCl2, HEPES.Na, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.1 | 40.6 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 87.207 | α = 90 |
b = 89.86 | β = 90 |
c = 264.582 | γ = 90 |
Symmetry | |
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Space Group | P 21 21 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 | ADSC QUANTUM 4 | mirrors | 2004-07-07 | M | SINGLE WAVELENGTH | |||||
2 | 1 | x-ray | CCD | MARMOSAIC 225 mm CCD | mirrors | 2004-09-24 | M | MAD | ||||||
3 | 1 | |||||||||||||
1,2 | 1 |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | SRS BEAMLINE PX14.2 | 0.978 | SRS | PX14.2 |
2 | SYNCHROTRON | SRS BEAMLINE PX10.1 | 0.9801, 0.98033, 0.976071 | SRS | PX10.1 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (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 | 2.1 | 52.93 | 99.8 | 0.088 | 0.088 | 5.7 | 4.3 | 100581 | 36 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | R-Sym I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | ||||||||||
1,2 | 2.24 | 2.36 | 99.6 | 99.6 | 0.35 | 0.35 | 3.4 | 3.1 | 14507 |
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-Factor (All) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | MAD | THROUGHOUT | 2.24 | 45.596 | 100449 | 5084 | 99.673 | 0.188 | 0.188 | 0.1849 | 0.2385 | random | 31.21 |
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] | |
0.784 | -0.779 | -0.005 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 41.924 |
r_dihedral_angle_4_deg | 22.293 |
r_dihedral_angle_3_deg | 16.908 |
r_dihedral_angle_1_deg | 5.936 |
r_scangle_it | 2.497 |
r_scbond_it | 1.644 |
r_angle_refined_deg | 1.484 |
r_scangle_other | 0.997 |
r_angle_other_deg | 0.88 |
r_mcangle_it | 0.859 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 15898 |
Nucleic Acid Atoms | |
Solvent Atoms | 806 |
Heterogen Atoms |
Software
Software | |
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Software Name | Purpose |
SCALA | data scaling |
SHELX | phasing |
RESOLVE | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
MOSFLM | data reduction |
HKL-2000 | data reduction |
CCP4 | data scaling |
SCALEPACK | data scaling |
SHELXD | phasing |