8WOL

Cryo-EM structure of the Mmp1 encapasulin from Mycobacterium smegmatis


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The structural and functional analysis of mycobacteria cysteine desulfurase-loaded encapsulin.

Tang, Y.Liu, Y.Zhang, M.Lan, W.Ma, M.Chen, C.Wu, S.Chen, R.Yan, Y.Feng, L.Li, Y.Guddat, L.W.Gao, Y.Liu, X.Rao, Z.

(2024) Commun Biol 7: 1656-1656

  • DOI: https://doi.org/10.1038/s42003-024-07299-8
  • Primary Citation of Related Structures:  
    8WOL, 8WON

  • PubMed Abstract: 

    Encapsulin nanocompartments loaded with dedicated cargo proteins via unique targeting peptides, play a key role in stress resistance, iron storage and natural product biosynthesis. Mmp1 and cysteine desulfurase (Enc-CD) have been identified as the most abundant representatives of family 2 encapsulin systems. However, the molecular assembly, catalytic mechanism, and physiological functions of the Mmp1 encapsulin system have not been studied in detail. Here we isolate and characterize an Enc-CD-loaded Mmp1 encapsulin system from Mycobacterium smegmatis mc 2 155. The cryo-EM structure of the Mmp1 encapsulin and the crystal structure of the naked cargo Enc-CD have been determined. The structure shows that the Mmp1 protomer assembles two conformation models, the icosahedron (T = 1) and homodecamer, with the resolution of 2.60 Å and 2.69 Å. The Enc-CD at 2.10 Å resolution is dimeric and loaded into the Mmp1 (T = 1) encapsulin through the N-terminal long disordered region. Mmp1 encapsulin protects Enc-CD against oxidation as well as to maintain structural stability. These studies provide new insights into the mechanism by which Enc-CD-loaded encapsulin stores sulfur and provides a framework for discovery of new anti-mycobacterial therapeutics.


  • Organizational Affiliation

    College of Life Sciences, State Key Laboratory of Medicinal Chemical Biology, Frontiers Science Center for Cell Responses, Nankai University, Tianjin, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Major membrane protein 1316Mycolicibacterium smegmatisMutation(s): 0 
Gene Names: mmpI
UniProt
Find proteins for A0A653FP42 (Mycolicibacterium smegmatis)
Explore A0A653FP42 
Go to UniProtKB:  A0A653FP42
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A653FP42
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32201033
National Natural Science Foundation of China (NSFC)China32171259
National Key Research and Development Program of ChinaChina2022YFA1305900
Shanghai Rising-Star ProgramChina23QA1406400

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-27
    Type: Initial release
  • Version 1.1: 2025-01-01
    Changes: Data collection, Database references