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- PDB-5uwy: The crystal structure of thioredoxin reductase from Streptococcus... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5uwy | ||||||
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Title | The crystal structure of thioredoxin reductase from Streptococcus pyogenes MGAS5005 | ||||||
![]() | Thioredoxin reductase | ||||||
![]() | OXIDOREDUCTASE / thioredoxin reductase / Structural Genomics / Center for Structural Genomics of Infectious Diseases / CSGID | ||||||
Function / homology | FLAVIN-ADENINE DINUCLEOTIDE / PHOSPHATE ION / : ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Tan, K. / Zhou, M. / Anderson, W.F. / Joachimiak, A. / Center for Structural Genomics of Infectious Diseases (CSGID) | ||||||
Funding support | ![]()
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![]() | ![]() Title: The crystal structure of thioredoxin reductase from Streptococcus pyogenes MGAS5005 Authors: Tan, K. / Zhou, M. / Anderson, W.F. / Joachimiak, 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 | ![]() | 130.7 KB | Display | ![]() |
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PDB format | ![]() | 107.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 728.6 KB | Display | ![]() |
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Full document | ![]() | 734.3 KB | Display | |
Data in XML | ![]() | 14.1 KB | Display | |
Data in CIF | ![]() | 18.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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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 on special symmetry positions |
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Components
#1: Protein | Mass: 34112.090 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: A0A0C6G0E1, thioredoxin-disulfide reductase | ||
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#2: Chemical | ChemComp-FAD / | ||
#3: Chemical | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.84 Å3/Da / Density % sol: 67.96 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 5.6 / Details: 1.0 M NaH2PO4/K2HPO4 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210r / Detector: CCD / Date: Feb 7, 2017 / Details: mirror |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97919 Å / Relative weight: 1 |
Reflection | Resolution: 2.72→50 Å / Num. obs: 14211 / % possible obs: 99.7 % / Observed criterion σ(I): -3 / Redundancy: 6.1 % / Biso Wilson estimate: 38.7 Å2 / Rmerge(I) obs: 0.067 / Rpim(I) all: 0.03 / Χ2: 0.96 / Net I/av σ(I): 22.1 / Net I/σ(I): 2.4 |
Reflection shell | Resolution: 2.72→2.78 Å / Redundancy: 5.4 % / Rmerge(I) obs: 0.809 / Mean I/σ(I) obs: 2.6 / Num. unique all: 916 / Num. unique obs: 941 / CC1/2: 0.922 / Rpim(I) all: 0.336 / Χ2: 0.846 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.72→45.253 Å
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Refine LS restraints |
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LS refinement shell |
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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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