1IAK
HISTOCOMPATIBILITY ANTIGEN I-AK
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1IEA | PDB ENTRY 1IEA |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 4.75 | 20% PEG 4000, 7% EG, 80MM A.S, 200MM AMM.ACETATE, 50MM NA.ACETATE PH 4.75 |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.4 | 63.85 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 112.25 | α = 90 |
b = 112.25 | β = 90 |
c = 99.72 | γ = 90 |
Symmetry | |
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Space Group | P 41 21 2 |
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 | 110 | IMAGE PLATE | FUJI |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | NSLS BEAMLINE X4A | NSLS | X4A |
Data Collection
Overall | |||||||||||||||||||
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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 | 1.9 | 95.7 | 0.05 | 11.7 | 4.12 | 48139 | 25.1 |
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) | |||||||||||
1 | 1.9 | 1.99 | 96.6 | 0.27 | 2.5 |
Refinement
Statistics | |||||||||||||||||||
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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 ENTRY 1IEA | 1.9 | 10 | 47865 | 2410 | 95.7 | 0.214 | 0.214 | 0.263 | RANDOM | 30.9 |
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] | |
-4.22 | -4.22 | 8.43 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
x_dihedral_angle_d | 25.1 |
x_scangle_it | 2.67 |
x_mcangle_it | 2.53 |
x_angle_deg | 2 |
x_scbond_it | 1.65 |
x_mcbond_it | 1.47 |
x_improper_angle_d | 1.18 |
x_bond_d | 0.009 |
x_bond_d_na | |
x_bond_d_prot |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 3129 |
Nucleic Acid Atoms | |
Solvent Atoms | 369 |
Heterogen Atoms | 42 |
Software
Software | |
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Software Name | Purpose |
HKL | data collection |
DENZO | data reduction |
SCALA | data scaling |
Agrovata | data reduction |
X-PLOR | model building |
X-PLOR | refinement |
HKL | data reduction |
CCP4 | data scaling |
X-PLOR | phasing |