[English] 日本語
![](img/lk-miru.gif)
- PDB-8pv0: Crystal structure of tropomyosin (Cdc8) cables, Conformers 2 and 3 -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 8pv0 | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of tropomyosin (Cdc8) cables, Conformers 2 and 3 | ||||||
![]() | Tropomyosin | ||||||
![]() | STRUCTURAL PROTEIN / Tropomyosin / cdc8 / yeast / overlap complex | ||||||
Function / homology | ![]() plasma membrane fusion involved in cytogamy / formin-nucleated actin cable / mating projection actin fusion focus / RHOV GTPase cycle / actin lateral binding / actin cortical patch organization / mitotic actomyosin contractile ring assembly / mitotic actomyosin contractile ring / actomyosin contractile ring / actin cortical patch ...plasma membrane fusion involved in cytogamy / formin-nucleated actin cable / mating projection actin fusion focus / RHOV GTPase cycle / actin lateral binding / actin cortical patch organization / mitotic actomyosin contractile ring assembly / mitotic actomyosin contractile ring / actomyosin contractile ring / actin cortical patch / mitotic actomyosin contractile ring contraction / mating projection tip / cell division site / mitotic cytokinesis / actin filament / actin filament organization / actin filament binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Reinke, P.Y.A. / Zahn, M. / Fedorov, R. / Manstein, D.J. | ||||||
Funding support | ![]()
| ||||||
![]() | ![]() Title: Atomic structure of tropomyosin cables Authors: Reinke, P.Y.A. / Manstein, D.J. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 324.6 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 224.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441.7 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 444.5 KB | Display | |
Data in XML | ![]() | 22.3 KB | Display | |
Data in CIF | ![]() | 31 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
---|
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
2 |
| ||||||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 19182.625 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: cdc8, SPAC27F1.02c / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | Has ligand of interest | Y | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.54 Å3/Da / Density % sol: 51.58 % |
---|---|
Crystal grow | Temperature: 298 K / Method: vapor diffusion / pH: 7.8 Details: 10 mM Tris HCl pH 7.8, 0.15 M ammonium acetate, and 40% MPD |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: May 13, 2017 |
Radiation | Monochromator: 0.9797 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9797 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→107.93 Å / Num. obs: 28799 / % possible obs: 98.9 % / Redundancy: 8.9 % / Biso Wilson estimate: 49.68 Å2 / CC1/2: 0.887 / Rmerge(I) obs: 0.088 / Net I/σ(I): 9.8 |
Reflection shell | Resolution: 2.4→2.5 Å / Num. unique obs: 2178 / CC1/2: 0.887 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 79.82 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.43→53.97 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS params. | Method: refined / Origin x: 59.0014265954 Å / Origin y: 67.4893369429 Å / Origin z: 18.9674726022 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS group | Selection details: all |