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- PDB-8xf2: Crystal structure of the reassembled C-phycocyanin hexamer from T... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8xf2 | |||||||||
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Title | Crystal structure of the reassembled C-phycocyanin hexamer from Thermoleptolyngbya sp. O-77 | |||||||||
![]() | (C-phycocyanin ...) x 2 | |||||||||
![]() | PHOTOSYNTHESIS / Hexamer | |||||||||
Function / homology | PHYCOCYANOBILIN / PHOSPHATE ION![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Nguyen, H.K. / Teramoto, T. / Kakuta, Y. / Yoon, K.S. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Disassembly and reassembly of the non-conventional thermophilic C-phycocyanin. Authors: Nguyen, H.K. / Minato, T. / Teramoto, T. / Ogo, S. / Kakuta, Y. / Yoon, K.S. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 436.9 KB | Display | ![]() |
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PDB format | ![]() | 362.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 5.4 MB | Display | ![]() |
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Full document | ![]() | 5.6 MB | Display | |
Data in XML | ![]() | 107.6 KB | Display | |
Data in CIF | ![]() | 142.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8xf0C ![]() 8xf1C ![]() 8xf3C 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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Unit cell |
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Components on special symmetry positions |
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Components
-C-phycocyanin ... , 2 types, 12 molecules ACEGIKBDFHJL
#1: Protein | Mass: 17560.531 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) ![]() #2: Protein | Mass: 18097.465 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) ![]() |
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-Non-polymers , 4 types, 2052 molecules ![](data/chem/img/CYC.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | ChemComp-CYC / #4: Chemical | #5: Chemical | #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.71 Å3/Da / Density % sol: 54.59 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 8% Tacsimate (pH 5.0), 20% polyethylene glycol 3350 |
-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: Jun 4, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.98→50 Å / Num. obs: 162251 / % possible obs: 99.9 % / Redundancy: 7 % / CC1/2: 0.991 / Net I/σ(I): 7.1 |
Reflection shell | Resolution: 1.98→2.09 Å / Num. unique obs: 25284 / CC1/2: 0.435 |
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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: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.98→49 Å
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Refine LS restraints |
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LS refinement shell |
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