+
Open data
-
Basic information
Entry | Database: PDB / ID: 5a96 | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of Lymantria dispar CPV14 polyhedra | ||||||
![]() | POLYHEDRIN | ||||||
![]() | VIRAL PROTEIN / INSECT VIRUS OCCLUSION BODY / MICROCRYSTAL | ||||||
Function / homology | Cypovirus polyhedrin / Cypovirus polyhedrin / GTP binding / GUANOSINE-5'-TRIPHOSPHATE / 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 |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 62.4 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 49.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 859.8 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 861.3 KB | Display | |
Data in XML | ![]() | 12.6 KB | Display | |
Data in CIF | ![]() | 17.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5a8sC ![]() 5a8tC ![]() 5a8uC ![]() 5a8vC ![]() 5a98C ![]() 5a99C ![]() 5a9aC ![]() 5a9bC ![]() 5a9cC ![]() 5a9pC C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 28723.441 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: DISULFIDE BOND BETWEEN A 68 AND A 97 / Source: (gene. exp.) ![]() ![]() ![]() |
---|---|
#2: Chemical | ChemComp-GTP / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 1.6 Å3/Da / Density % sol: 22 % / Description: NONE |
---|---|
Crystal grow | pH: 7.5 / Details: pH 7.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS / Detector: PIXEL |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 1.91→72.5 Å / Num. obs: 12952 / % possible obs: 92.3 % / Observed criterion σ(I): 1 / Redundancy: 7.9 % / Biso Wilson estimate: 10.86 Å2 / Rmerge(I) obs: 0.2 / Net I/σ(I): 8.4 |
Reflection shell | Resolution: 1.91→2.02 Å / Redundancy: 1.6 % / Rmerge(I) obs: 0.33 / Mean I/σ(I) obs: 1.8 / % possible all: 52.1 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 1.914→32.445 Å / SU ML: 0.15 / σ(F): 1.36 / Phase error: 18.19 / Stereochemistry target values: MLHL
| |||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.29 Å / VDW probe radii: 0.5 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 35.426 Å2 / ksol: 0.462 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 13 Å2
| |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.914→32.445 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
|