7K5W | pdb_00007k5w

Cryo-EM structure of heterologous protein complex loaded Thermotoga maritima encapsulin capsid

• PDB DOI: https://doi.org/10.2210/pdb7K5W/pdb
• EM Map EMD-22617: EMDB EMDataResource

• Classification: HYDROLASE
• Organism(s): Thermotoga maritima
• Expression System: Insect cell expression vector pTIE1
• Mutation(s): No 


• Deposited: 2020-09-17 Released: 2020-10-07 
• Deposition Author(s): Xiong, X., Sun, C., Vago, F.S., Klose, T., Zhu, J., Jiang, W.
• Funding Organization(s): Chinese Academy of Sciences

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.87 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM Structure of Heterologous Protein Complex Loaded Thermotoga Maritima Encapsulin Capsid.

Xiong, X., Sun, C., Vago, F.S., Klose, T., Zhu, J., Jiang, W.

(2020) Biomolecules 10

• PubMed: 32961724 
• DOI: https://doi.org/10.3390/biom10091342
• Primary Citation Related Structures: 
  7K5W


• PubMed Abstract: 
  

  Encapsulin is a class of nanocompartments that is unique in bacteria and archaea to confine enzymatic activities and sequester toxic reaction products. Here we present a 2.87 Å resolution cryo-EM structure of Thermotoga maritima encapsulin with heterologous protein complex loaded. It is the first successful case of expressing encapsulin and heterologous cargo protein in the insect cell system. Although we failed to reconstruct the cargo protein complex structure due to the signal interference of the capsid shell, we were able to observe some unique features of the cargo-loaded encapsulin shell, for example, an extra density at the fivefold pore that has not been reported before. These results would lead to a more complete understanding of the encapsulin cargo assembly process of T. maritima .

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Organizational Affiliation: 
• University of Chinese Academy of Sciences, Beijing 100864, China.
Shanghai Center for Plant Stress Biology, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 201602, China.
Department of Biological Sciences, Markey Center for Structural Biology, Purdue University, West Lafayette, IN 47906, USA.
Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN 47907, USA.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Homo 60-mer - A60 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 31.49 kDa 
• Atom Count: 2,141 
• Modeled Residue Count: 264 
• Deposited Residue Count: 273 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maritimacin	A	273	Thermotoga maritima	Mutation(s): 0  Gene Names: TM_0785 EC: 3.4
UniProt
Find proteins for Q9WZP2 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9WZP2  Go to UniProtKB:  Q9WZP2

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.87 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	jspr

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-10-07 
Deposition Author(s): Xiong, X., Sun, C., Vago, F.S., Klose, T., Zhu, J., Jiang, W.

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Funding Organization	Location	Grant Number
Chinese Academy of Sciences	China	XDB27040101

Revision History  

• Version 1.0: 2020-10-07
  Type: Initial release
  
• Version 1.1: 2024-03-06
  Changes: Data collection, Database references, Derived calculations