3FKC
Crystal Structure of Human Zinc finger and BTB domain containing 33
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 2VKP | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 |
experimental model | PDB | 2IF5 | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 |
experimental model | PDB | 2NN2 | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 |
experimental model | PDB | 2IHC | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 |
experimental model | PDB | 1BUO | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 |
experimental model | PDB | 1CS3 | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 |
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP | 4 | 277 | 0.8M (NH4)2SO4 0.1M citrate pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3 | 59.03 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 118.358 | α = 90 |
b = 118.358 | β = 90 |
c = 38.981 | γ = 120 |
Symmetry | |
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Space Group | P 62 2 2 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | IMAGE PLATE | RIGAKU RAXIS IV | 2008-03-29 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | ROTATING ANODE | RIGAKU FR-E SUPERBRIGHT | 1.5 |
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 | 1.7 | 38.984 | 99.7 | 0.057 | 0.057 | 27.1 | 10.2 | 18197 | 18142 | 23.6 |
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 | 1.7 | 1.79 | 99 | 0.664 | 3 | 9.9 | 2560 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | 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 | MOLECULAR REPLACEMENT | THROUGHOUT | PDB ENTRIES 2VKP,2IF5,2NN2,2IHC,1BUO,1CS3 | 1.7 | 38.98 | 18205 | 18127 | 926 | 99.57 | 0.177 | 0.177 | 0.176 | 0.195 | RANDOM | 23.336 |
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] | |
-0.63 | -0.32 | -0.63 | 0.95 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 30.739 |
r_dihedral_angle_3_deg | 12.368 |
r_dihedral_angle_4_deg | 10.956 |
r_scangle_it | 8.385 |
r_scbond_it | 6.558 |
r_dihedral_angle_1_deg | 6.231 |
r_mcangle_it | 4.105 |
r_mcbond_it | 2.716 |
r_angle_refined_deg | 1.45 |
r_angle_other_deg | 0.994 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 882 |
Nucleic Acid Atoms | |
Solvent Atoms | 122 |
Heterogen Atoms |
Software
Software | |
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Software Name | Purpose |
MOSFLM | data reduction |
SCALA | data scaling |
PHASER | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
CrystalClear | data collection |