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- PDB-6gtq: Structure of the AtaT Y144F mutant toxin bound to the C-terminus ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6gtq | ||||||
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Title | Structure of the AtaT Y144F mutant toxin bound to the C-terminus of the antitoxin AtaR | ||||||
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![]() | TRANSCRIPTION / TA toxin / antitoxin / N-acetyl transferase / ribbon-helix-helix / RHH / bacterial repressor / toxin-antitoxin complex | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Garcia-Pino, A. / Jurenas, D. | ||||||
![]() | ![]() Title: Mechanism of regulation and neutralization of the AtaR-AtaT toxin-antitoxin system. Authors: Jurenas, D. / Van Melderen, L. / Garcia-Pino, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 175 KB | Display | ![]() |
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PDB format | ![]() | 138 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 503.6 KB | Display | ![]() |
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Full document | ![]() | 508.9 KB | Display | |
Data in XML | ![]() | 19.8 KB | Display | |
Data in CIF | ![]() | 27.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6gtoC ![]() 6gtpSC ![]() 6gtrC ![]() 6gtsC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
-Protein / Protein/peptide , 2 types, 4 molecules ABCD
#1: Protein | Mass: 19900.791 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() References: UniProt: A0A1V3CQ74 #2: Protein/peptide | Mass: 5254.099 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() |
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-Non-polymers , 7 types, 228 molecules ![](data/chem/img/CL.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/ACT.gif)
![](data/chem/img/FLC.gif)
![](data/chem/img/IOD.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/ACT.gif)
![](data/chem/img/FLC.gif)
![](data/chem/img/IOD.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | #4: Chemical | ChemComp-GOL / #5: Chemical | ChemComp-PO4 / | #6: Chemical | ChemComp-ACT / #7: Chemical | ChemComp-FLC / | #8: Chemical | ChemComp-IOD / | #9: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.87 Å3/Da / Density % sol: 57.12 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 5 / Details: 0.1 M citrate, 20%(w/v) PEG 6000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Jul 22, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2.29→50 Å / Num. obs: 25564 / % possible obs: 99.3 % / Redundancy: 10.8 % / Biso Wilson estimate: 72.62 Å2 / Rmerge(I) obs: 0.065 / Net I/σ(I): 12.1 |
Reflection shell | Resolution: 2.29→2.35 Å / Rmerge(I) obs: 1.321 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6GTP Resolution: 2.49→35.24 Å / Cor.coef. Fo:Fc: 0.938 / Cor.coef. Fo:Fc free: 0.92 / SU R Cruickshank DPI: 0.343 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.377 / SU Rfree Blow DPI: 0.243 / SU Rfree Cruickshank DPI: 0.239
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Displacement parameters | Biso mean: 66.34 Å2
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Refine analyze | Luzzati coordinate error obs: 0.32 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: 1 / Resolution: 2.49→35.24 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.49→2.63 Å / Total num. of bins used: 10
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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