[English] 日本語
![](img/lk-miru.gif)
- PDB-2a6y: Crystal structure of Emp47p carbohydrate recognition domain (CRD)... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 2a6y | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of Emp47p carbohydrate recognition domain (CRD), tetragonal crystal form | ||||||
![]() | Emp47p (form1) | ||||||
![]() | SUGAR BINDING PROTEIN / ![]() ![]() | ||||||
Function / homology | ![]() carbohydrate derivative binding / fungal-type vacuole membrane / COPII-coated ER to Golgi transport vesicle / ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Satoh, T. / Sato, K. / Kanoh, A. / Yamashita, K. / Kato, R. / Nakano, A. / Wakatsuki, S. | ||||||
![]() | ![]() Title: Structures of the carbohydrate recognition domain of Ca2+-independent cargo receptors Emp46p and Emp47p. Authors: Satoh, T. / Sato, K. / Kanoh, A. / Yamashita, K. / Yamada, Y. / Igarashi, N. / Kato, R. / Nakano, A. / Wakatsuki, S. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 114.2 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 93.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 2a6vC ![]() 2a6wC ![]() 2a6xC ![]() 2a6zC ![]() 2a70C ![]() 2a71C C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
Unit cell |
| ||||||||||||
Components on special symmetry positions |
|
-
Components
#1: Protein | Mass: 28499.582 Da / Num. of mol.: 1 / Fragment: RESIDUES 1-254 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Plasmid: pGEX4T-1 / Production host: ![]() ![]() ![]() ![]() | ||
---|---|---|---|
#2: Chemical | ![]() #3: Water | ChemComp-HOH / | ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.2 Å3/Da / Density % sol: 43.3 % |
---|---|
Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.1 Details: Sodium dihydrogen phosphate, Dipotassium hydrogen phosphate, Lithium sulfate, CAPS, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction |
| ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction source |
| ||||||||||||||||||
Detector |
| ||||||||||||||||||
Radiation |
| ||||||||||||||||||
Radiation wavelength |
| ||||||||||||||||||
Reflection | Resolution: 1.42→50 Å / Num. all: 48179 / Num. obs: 48001 / % possible obs: 99.6 % / Redundancy: 13.6 % / Biso Wilson estimate: 15.4 Å2 / Rmerge(I) obs: 0.058 / Net I/σ(I): 14 | ||||||||||||||||||
Reflection shell | Resolution: 1.42→1.47 Å / Redundancy: 13.9 % / Rmerge(I) obs: 0.374 / Mean I/σ(I) obs: 3.6 / Num. unique all: 4735 / % possible all: 99.9 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure![]() ![]()
| |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 6 / Occupancy sum hydrogen: 0 / Occupancy sum non hydrogen: 2141.5 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.42→10 Å
| |||||||||||||||||||||||||||||||||
Refine LS restraints |
|