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Open data
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Basic information
Entry | Database: PDB / ID: 4ots | ||||||
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Title | Crystal Structure of isolated Operophtera brumata CPV18 | ||||||
![]() | Polyhedrin | ||||||
![]() | VIRAL PROTEIN / microcrystals / polyhedra / occlusion body | ||||||
Function / homology | Cypovirus polyhedrin, Cypovirus 1 type / Cypovirus polyhedrin protein / ATP binding / metal ion binding / ADENOSINE-5'-TRIPHOSPHATE / GUANOSINE-5'-TRIPHOSPHATE / Polyhedrin![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Stuart, D.I. / Sutton, G.C. / Axford, D. / Ji, X. | ||||||
![]() | ![]() Title: In cellulo structure determination of a novel cypovirus polyhedrin. Authors: Axford, D. / Ji, X. / Stuart, D.I. / Sutton, G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 147 KB | Display | ![]() |
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PDB format | ![]() | 125.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1019.5 KB | Display | ![]() |
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Full document | ![]() | 1020.3 KB | Display | |
Data in XML | ![]() | 13.3 KB | Display | |
Data in CIF | ![]() | 19.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 28301.373 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Non-polymers , 5 types, 245 molecules ![](data/chem/img/CL.gif)
![](data/chem/img/GTP.gif)
![](data/chem/img/ATP.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/GTP.gif)
![](data/chem/img/ATP.gif)
![](data/chem/img/MG.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-CL / |
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#3: Chemical | ChemComp-GTP / |
#4: Chemical | ChemComp-ATP / |
#5: Chemical | ChemComp-MG / |
#6: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.6 Å3/Da / Density % sol: 23.08 % |
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Crystal grow | Temperature: 301 K / pH: 7.5 Details: Crystals formed naturally within the cytoplasm and were purified from cells, pH 7.5, temperature 301K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jul 28, 2011 / Details: mirrors |
Radiation | Monochromator: double crystal Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9686 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→72.686 Å / Num. all: 19343 / Num. obs: 19343 / % possible obs: 97.2 % / Observed criterion σ(F): 1.34 / Observed criterion σ(I): 1.34 |
Reflection shell | Highest resolution: 1.7 Å |
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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: 1.704→27.473 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: -20.9564 Å / Origin y: 8.6787 Å / Origin z: -34.0137 Å
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Refinement TLS group | Selection details: all |