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Open data
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Basic information
Entry | Database: PDB / ID: 8er1 | |||||||||
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Title | X-ray crystal structure of Tet(X6) | |||||||||
![]() | Flavin-dependent monooxygenase | |||||||||
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Function / homology | ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Kumar, H. / Tolia, N.H. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of anhydrotetracycline-bound Tet(X6) reveals the mechanism for inhibition of type 1 tetracycline destructases. Authors: Kumar, H. / Williford, E.E. / Blake, K.S. / Virgin-Downey, B. / Dantas, G. / Wencewicz, T.A. / Tolia, N.H. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 191.7 KB | Display | ![]() |
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PDB format | ![]() | 122.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 8er0C ![]() 6wg9S S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 45647.730 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: tet(X) / Production host: ![]() ![]() ![]() References: UniProt: A0A316WTJ0, Oxidoreductases; Acting on paired donors, with incorporation or reduction of molecular oxygen; With NADH or NADPH as one donor, and incorporation of one atom of ...References: UniProt: A0A316WTJ0, ![]() |
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#2: Chemical | ChemComp-FAD / ![]() |
#3: Water | ChemComp-HOH / ![]() |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.38 Å3/Da / Density % sol: 48.36 % |
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Crystal grow![]() | Temperature: 291 K / Method: vapor diffusion, hanging drop / Details: Sodium thiocyanate, PEG3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Jun 10, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.9→19.9 Å / Num. obs: 33653 / % possible obs: 98.8 % / Redundancy: 3.5 % / Biso Wilson estimate: 31.7 Å2 / CC1/2: 0.999 / Net I/σ(I): 18.1 |
Reflection shell | Resolution: 1.9→1.94 Å / Mean I/σ(I) obs: 2.8 / Num. unique obs: 2240 / CC1/2: 0.976 / % possible all: 98 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 6WG9 Resolution: 1.9→19.9 Å / SU ML: 0.2121 / Cross valid method: FREE R-VALUE / σ(F): 1.4 / Phase error: 27.6626 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 40.97 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→19.9 Å
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Refine LS restraints |
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LS refinement shell |
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