[English] 日本語
![](img/lk-miru.gif)
- PDB-6uct: Crystal structure of Mal de Rio Cuarto virus P9-1 viroplasm prote... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 6uct | |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | Crystal structure of Mal de Rio Cuarto virus P9-1 viroplasm protein (C-arm deletion mutant) | |||||||||||||||
![]() | p9-1 | |||||||||||||||
![]() | VIRAL PROTEIN / Fijivirus / MRCV / Wheat / Maize / Reoviridae / viroplasm | |||||||||||||||
Function / homology | Reovirus P9-like / Reovirus P9-like family / p9-1![]() | |||||||||||||||
Biological species | ![]() | |||||||||||||||
Method | ![]() ![]() ![]() | |||||||||||||||
![]() | Llauger, G. / Klinke, S. / Monti, D. / Sycz, G. / Cerutti, M.L. / Goldbaum, F.A. / del Vas, M. / Otero, L.H. | |||||||||||||||
Funding support | ![]()
| |||||||||||||||
![]() | ![]() Title: Crystal structure of Mal de Rio Cuarto virus P9-1 viroplasm protein (C-arm deletion mutant) Authors: Llauger, G. / Klinke, S. / Monti, D. / Sycz, G. / Cerutti, M.L. / Goldbaum, F.A. / del Vas, M. / Otero, L.H. | |||||||||||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 118.9 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 91.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 247.2 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 247.2 KB | Display | |
Data in XML | ![]() | 920 B | Display | |
Data in CIF | ![]() | 3.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3vjjS S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 37256.883 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 48.81 % |
---|---|
Crystal grow | Temperature: 294 K / Method: vapor diffusion, hanging drop / Details: 13% (w/v) PEG 8000, 0.2 M calcium acetate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Feb 17, 2019 |
Radiation | Monochromator: CRYOGENICALLY COOLED CHANNEL CUT SI[111] CRYSTAL MONOCHROMATOR Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 3.47→47.8 Å / Num. obs: 5035 / % possible obs: 99.2 % / Redundancy: 24.9 % / CC1/2: 0.999 / Rmerge(I) obs: 0.132 / Rpim(I) all: 0.027 / Rrim(I) all: 0.136 / Net I/σ(I): 15.8 |
Reflection shell | Resolution: 3.47→3.8 Å / Redundancy: 25.6 % / Rmerge(I) obs: 2.912 / Mean I/σ(I) obs: 1.6 / Num. unique obs: 1138 / CC1/2: 0.548 / Rpim(I) all: 0.582 / Rrim(I) all: 3.013 / % possible all: 96.8 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 3VJJ Resolution: 3.47→43.28 Å / Cor.coef. Fo:Fc: 0.946 / Cor.coef. Fo:Fc free: 0.926 / Cross valid method: THROUGHOUT / σ(F): 0 / SU Rfree Blow DPI: 0.613
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 281.62 Å2 / Biso mean: 185.21 Å2 / Biso min: 112.71 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.47→43.28 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 3.47→3.88 Å / Rfactor Rfree error: 0 / Total num. of bins used: 5
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS params. | Method: refined / Origin x: 13.2924 Å / Origin y: -15.2388 Å / Origin z: -0.4668 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS group | Selection details: { A|* } |