[English] 日本語
![](img/lk-miru.gif)
- EMDB-21810: Cryo-EM structure of engineered variant of the Encapsulin from Th... -
+
Open data
-
Basic information
Entry | Database: EMDB / ID: EMD-21810 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Cryo-EM structure of engineered variant of the Encapsulin from Thermotoga maritima (TmE) | |||||||||
![]() | Encapsulin protein | |||||||||
![]() |
| |||||||||
![]() | Proteolysis / Cytolysis / Defense Response to Bacterium / Extracellular Region / HYDROLASE | |||||||||
Function / homology | Type 1 encapsulin shell protein / Encapsulating protein for peroxidase / encapsulin nanocompartment / Hydrolases; Acting on peptide bonds (peptidases) / peptidase activity / iron ion transport / intracellular iron ion homeostasis / proteolysis / Type 1 encapsulin shell protein![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.99 Å | |||||||||
![]() | Williams E / Jenkins M | |||||||||
Funding support | ![]()
| |||||||||
![]() | ![]() Title: Cryo-EM structure of engineered variant of the Encapsulin from Thermotoga maritima (TmE) Authors: Williams E / Zhao H / Jenkins M / Juneja P / Lutz S | |||||||||
History |
|
-
Structure visualization
Movie |
![]() |
---|---|
Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
-
Downloads & links
-EMDB archive
Map data | ![]() | 27.5 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 10.4 KB 10.4 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 14.1 KB | Display | ![]() |
Images | ![]() | 242 KB | ||
Filedesc metadata | ![]() | 5.2 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 501 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 500.5 KB | Display | |
Data in XML | ![]() | 14 KB | Display | |
Data in CIF | ![]() | 18.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6wkvMC M: atomic model generated by this map C: citing same article ( |
---|---|
Similar structure data |
-
Links
EMDB pages | ![]() ![]() |
---|---|
Related items in Molecule of the Month |
-
Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | Encapsulin protein | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.04 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
|
-Supplemental data
-
Sample components
-Entire : Mutant Enapsulin protein
Entire | Name: Mutant Enapsulin protein |
---|---|
Components |
|
-Supramolecule #1: Mutant Enapsulin protein
Supramolecule | Name: Mutant Enapsulin protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 / Details: FMN bound to Encapsulin |
---|---|
Source (natural) | Organism: ![]() ![]() |
-Macromolecule #1: Encapsulin
Macromolecule | Name: Encapsulin / type: protein_or_peptide / ID: 1 / Number of copies: 60 / Enantiomer: LEVO / EC number: Hydrolases; Acting on peptide bonds (peptidases) |
---|---|
Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 29.603766 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MEFLKRSFAP LTEKQWQEID NRAREIFKTQ LYGRKFVDVE GPYGWEYAAH PLGEVEVLSD ENEVVKWGLR KSLPLIELRA TFTLDLWEL DNLERGKPNV DLSSLEETVR KVAEFEDEVI FRGCEKSGVK GLLSFEERKI ECGSTPKDLL EAIVRALSIF S KDGIEGPY ...String: MEFLKRSFAP LTEKQWQEID NRAREIFKTQ LYGRKFVDVE GPYGWEYAAH PLGEVEVLSD ENEVVKWGLR KSLPLIELRA TFTLDLWEL DNLERGKPNV DLSSLEETVR KVAEFEDEVI FRGCEKSGVK GLLSFEERKI ECGSTPKDLL EAIVRALSIF S KDGIEGPY TLVINTDRWI NFLGGEKRVE ECLRGGKIIT TPRIEDALVV SERGGDFKLI LGQDLSIGYE DREKDAVRLF IT ETFTFQV VNPEALILLK F UniProtKB: Type 1 encapsulin shell protein |
-Macromolecule #2: FLAVIN MONONUCLEOTIDE
Macromolecule | Name: FLAVIN MONONUCLEOTIDE / type: ligand / ID: 2 / Number of copies: 60 / Formula: FMN |
---|---|
Molecular weight | Theoretical: 456.344 Da |
Chemical component information | ![]() ChemComp-FMN: |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
![]() | single particle reconstruction |
Aggregation state | particle |
-
Sample preparation
Buffer | pH: 7.5 |
---|---|
Grid | Material: COPPER / Mesh: 300 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Atmosphere: AIR |
Vitrification | Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV |
-
Electron microscopy
Microscope | FEI TALOS ARCTICA |
---|---|
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Number grids imaged: 1 / Average electron dose: 54.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: OTHER / Cs: 2.7 mm |
Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |