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- PDB-6k6r: Crystal structure of Saccharomyces cerevisiae single domain sulfu... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6k6r | ||||||
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Title | Crystal structure of Saccharomyces cerevisiae single domain sulfurtranferase RDL2 | ||||||
![]() | Thiosulfate sulfurtransferase RDL2, mitochondrial | ||||||
![]() | TRANSFERASE / thiosulfate:cyanide sulfurtransferase / Rhodanese / Saccharomyces cerevisiae | ||||||
Function / homology | ![]() thiosulfate sulfurtransferase / thiosulfate sulfurtransferase activity / mitochondrion Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Li, H.J. / Wang, Q.D. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Saccharomyces cerevisiaeRhodanese RDL2 Uses the ArgResidue of the Active-Site Loop for Thiosulfate Decomposition Authors: Wang, Q.D. / Li, H. / Xia, Y. / Xun, L. / Li, H.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 63.6 KB | Display | ![]() |
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PDB format | ![]() | 45.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 427.2 KB | Display | ![]() |
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Full document | ![]() | 428.2 KB | Display | |
Data in XML | ![]() | 11.5 KB | Display | |
Data in CIF | ![]() | 14.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3d1pS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 16758.461 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: ATCC 204508 / S288c / Gene: RDL2, AIM42, FMP31, YOR286W Production host: ![]() ![]() References: UniProt: Q08742, thiosulfate sulfurtransferase #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.61 Å3/Da / Density % sol: 52.89 % |
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Crystal grow | Temperature: 289.15 K / Method: vapor diffusion, hanging drop / pH: 7 / Details: 3.5M Ammonium citrate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Oct 13, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 2.47→50 Å / Num. obs: 11448 / % possible obs: 100 % / Redundancy: 13.1 % / CC1/2: 0.99 / Net I/σ(I): 24.69 |
Reflection shell | Resolution: 2.47→2.51 Å |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3D1P Resolution: 2.471→27.595 Å / Cross valid method: FREE R-VALUE
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Refinement step | Cycle: LAST / Resolution: 2.471→27.595 Å
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