7S2T

M. xanthus encapsulin EncA bound to EncB targeting peptide

  • Classification: VIRUS LIKE PARTICLE
  • Organism(s): Myxococcus xanthus
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2021-09-03 Released: 2022-02-02 
  • Deposition Author(s): Eren, E.
  • Funding Organization(s): National Institutes of Health/National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIH/NIAMS)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.45 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural characterization of the Myxococcus xanthus encapsulin and ferritin-like cargo system gives insight into its iron storage mechanism.

Eren, E.Wang, B.Winkler, D.C.Watts, N.R.Steven, A.C.Wingfield, P.T.

(2022) Structure 30: 551-563.e4

  • DOI: https://doi.org/10.1016/j.str.2022.01.008
  • Primary Citation of Related Structures:  
    7S20, 7S21, 7S2T, 7S4Q, 7S5C, 7S5K, 7S8T

  • PubMed Abstract: 

    Encapsulins are bacterial organelle-like cages involved in various aspects of metabolism, especially protection from oxidative stress. They can serve as vehicles for a wide range of medical applications. Encapsulin shell proteins are structurally similar to HK97 bacteriophage capsid protein and their function depends on the encapsulated cargos. The Myxococcus xanthus encapsulin system comprises EncA and three cargos: EncB, EncC, and EncD. EncB and EncC are similar to bacterial ferritins that can oxidize Fe +2 to less toxic Fe +3 . We analyzed EncA, EncB, and EncC by cryo-EM and X-ray crystallography. Cryo-EM shows that EncA cages can have T = 3 and T = 1 symmetry and that EncA T = 1 has a unique protomer arrangement. Also, we define EncB and EncC binding sites on EncA. X-ray crystallography of EncB and EncC reveals conformational changes at the ferroxidase center and additional metal binding sites, suggesting a mechanism for Fe oxidation and storage within the encapsulin shell.


  • Organizational Affiliation

    Protein Expression Laboratory, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, MD 20892, USA. Electronic address: elif.eren@nih.gov.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
EncAA,
B [auth C],
C [auth B]
301Myxococcus xanthusMutation(s): 0 
Gene Names: MXAN_3556
UniProt
Find proteins for Q1D6H4 (Myxococcus xanthus (strain DK1622))
Explore Q1D6H4 
Go to UniProtKB:  Q1D6H4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ1D6H4
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
EncB targeting peptideD [auth F],
E [auth G],
F [auth H]
12Myxococcus xanthusMutation(s): 0 
UniProt
Find proteins for Q1D6H3 (Myxococcus xanthus (strain DK1622))
Explore Q1D6H3 
Go to UniProtKB:  Q1D6H3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ1D6H3
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.45 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2022-02-02 
  • Deposition Author(s): Eren, E.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIH/NIAMS)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2022-02-02
    Type: Initial release
  • Version 1.1: 2022-02-23
    Changes: Database references
  • Version 1.2: 2022-04-20
    Changes: Database references
  • Version 1.3: 2024-06-05
    Changes: Data collection