9J1L | pdb_00009j1l

Side fiber of monocin


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.28 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

Structure of an F-type phage tail-like bacteriocin from Listeria monocytogenes.

Gu, Z.Ge, X.Wang, J.

(2025) Nat Commun 16: 1695-1695

  • DOI: https://doi.org/10.1038/s41467-025-57075-3
  • Primary Citation of Related Structures:  
    9J1J, 9J1K, 9J1L

  • PubMed Abstract: 

    F-type phage tail-like bacteriocins (PTLBs) are high-molecular-weight protein complexes exhibiting bactericidal activity and share evolutionary similarities with the tails of non-contractile siphoviruses. In this study, we present the atomic structure of monocin, a genetically engineered F-type PTLB from Listeria monocytogenes. Our detailed atomic-level analysis, excluding two chaperone proteins, provides crucial insights into the molecular architecture of F-type PTLBs. The core structure of monocin resembles TP901-1-like phage tails, featuring three side fibers with receptor-binding domains that connect to the baseplate for host adhesion. Based on these findings, we propose a potential mechanism by which F-type PTLBs induce cell death, offering a foundation for developing targeted antibacterial therapies.


  • Organizational Affiliation
    • State Key Laboratory of Membrane Biology, Beijing Frontier Research Center for Biological Structure, School of Life Sciences, Tsinghua University, Beijing, PR China.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Alpha-amylaseA [auth 1],
H [auth N],
M [auth n]
191Listeria monocytogenesMutation(s): 0 
Gene Names: 
UniProt
Find proteins for A0A3D7WJE9 (Listeria monocytogenes)
Explore A0A3D7WJE9 
Go to UniProtKB:  A0A3D7WJE9
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UniProt GroupA0A3D7WJE9
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
FtbP178Listeria monocytogenesMutation(s): 0 
Gene Names: 
UniProt
Find proteins for A0A3R0H0Z2 (Listeria monocytogenes)
Explore A0A3R0H0Z2 
Go to UniProtKB:  A0A3R0H0Z2
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UniProt GroupA0A3R0H0Z2
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
FtbOC [auth 3],
N [auth o]
159Listeria monocytogenesMutation(s): 0 
Gene Names: 
UniProt
Find proteins for A0A3T2E047 (Listeria monocytogenes)
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Go to UniProtKB:  A0A3T2E047
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UniProt GroupA0A3T2E047
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
FtbOI [auth O]146Listeria monocytogenesMutation(s): 0 
Gene Names: 
UniProt
Find proteins for A0A3T2E047 (Listeria monocytogenes)
Explore A0A3T2E047 
Go to UniProtKB:  A0A3T2E047
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3T2E047
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.28 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32371254
National Natural Science Foundation of China (NSFC)China32171190

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-08
    Type: Initial release
  • Version 1.1: 2025-02-26
    Changes: Data collection, Database references
  • Version 1.2: 2025-03-05
    Changes: Data collection, Database references
  • Version 1.3: 2025-07-23
    Changes: Data collection