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Open data
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Basic information
Entry | Database: PDB / ID: 5a8t | ||||||
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Title | Crystal structure of Antheraea mylitta CPV4 polyhedra type 2 | ||||||
![]() | POLYHEDRIN | ||||||
![]() | VIRAL PROTEIN / INSECT VIRUS OCCLUSION BODY / MICROCRYSTAL | ||||||
Function / homology | Cypovirus polyhedrin / Cypovirus polyhedrin / Polyhedrin![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ji, X. / Axford, D. / Owen, R. / Evans, G. / Ginn, H.M. / Sutton, G. / Stuart, D.I. | ||||||
![]() | ![]() Title: Polyhedra Structures and the Evolution of the Insect Viruses. Authors: Ji, X. / Axford, D. / Owen, R. / Evans, G. / Ginn, H.M. / Sutton, G. / Stuart, D.I. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 54.1 KB | Display | ![]() |
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PDB format | ![]() | 39.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 425.2 KB | Display | ![]() |
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Full document | ![]() | 428.1 KB | Display | |
Data in XML | ![]() | 10.3 KB | Display | |
Data in CIF | ![]() | 13.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5a8sSC ![]() 5a8uC ![]() 5a8vC ![]() 5a96C ![]() 5a98C ![]() 5a99C ![]() 5a9aC ![]() 5a9bC ![]() 5a9cC ![]() 5a9pC S: Starting model for refinement C: citing same article ( |
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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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Unit cell |
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Components
#1: Protein | Mass: 28880.314 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.7 Å3/Da / Density % sol: 26 % / Description: NONE |
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Crystal grow | pH: 7.5 / Details: pH 7.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 2→28 Å / Num. obs: 11543 / % possible obs: 88.5 % / Observed criterion σ(I): 1 / Redundancy: 7.6 % / Biso Wilson estimate: 21.74 Å2 / Rmerge(I) obs: 0.18 / Net I/σ(I): 8.1 |
Reflection shell | Resolution: 2→2.11 Å / Redundancy: 1.5 % / Rmerge(I) obs: 0.33 / Mean I/σ(I) obs: 1.7 / % possible all: 42.7 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 5A8S Resolution: 2.003→28.012 Å / SU ML: 0.25 / σ(F): 0 / Phase error: 22.82 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.72 Å / VDW probe radii: 1 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 56.56 Å2 / ksol: 0.425 e/Å3 | |||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 19.9 Å2
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Refinement step | Cycle: LAST / Resolution: 2.003→28.012 Å
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Refine LS restraints |
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LS refinement shell |
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