1VZM
OSTEOCALCIN FROM FISH ARGYROSOMUS REGIUS
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 8.5 | 294 | DROPS OF 1.5 MICRO-L OF PROTEIN SOLUTION, 10 MG/ML OSTEOCALCIN, 5 MM CACL2 AND 30 MM TRIS-HCL PH = 8, PLUS 1.5 MICRO-L OF WELL SOLUTION, MGCL2 0.2M, 30% PEG 4K AND TRIS-HCL 0.1M PH = 8.5, WERE EQUILIBRATED AGAINST 500 ML OF WELL SOLUTION AT 21DEGREES C OVER 2-3 WEEKS. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.11 | 41.6 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 48.7 | α = 90 |
b = 48.7 | β = 90 |
c = 119.1 | γ = 120 |
Symmetry | |
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Space Group | P 32 2 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 | CCD | ADSC CCD | 2003-06-15 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | ESRF BEAMLINE ID14-1 | ESRF | ID14-1 |
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 | 1.4 | 39.75 | 98.5 | 0.056 | 34.8 | 22.2 | 32430 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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 | 1.4 | 1.45 | 96.1 | 0.245 | 5.2 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (All) | 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 | SIRAS | THROUGHOUT | 1.4 | 39.75 | 32406 | 893 | 98.5 | 0.1916 | 0.1916 | 0.2346 | SHELLS |
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] | |
Coordinate Error | ||
---|---|---|
Structure Solution Method | Refinement High Resolution | Refinement Low Resolution |
11 | 811 | 1193.75 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
s_approx_iso_adps | 0.097 |
s_anti_bump_dis_restr | 0.083 |
s_similar_adp_cmpnt | 0.061 |
s_zero_chiral_vol | 0.058 |
s_non_zero_chiral_vol | 0.056 |
s_angle_d | 0.03 |
s_from_restr_planes | 0.0243 |
s_bond_d | 0.011 |
s_rigid_bond_adp_cmpnt | 0.004 |
s_similar_dist |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 996 |
Nucleic Acid Atoms | |
Solvent Atoms | 191 |
Heterogen Atoms | 8 |
Software
Software | |
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Software Name | Purpose |
SHELXL-97 | refinement |
DENZO | data reduction |
SCALEPACK | data scaling |
SHELXCD | phasing |
SHELXD | phasing |
SHELXE | phasing |