9MOG | pdb_00009mog

Structure of the distal part of the bacteriophage T4 tail


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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Literature

In situ structures of the portal-neck-tail complex of bacteriophage T4 inform a viral genome positioning mechanism.

Fokine, A.Zhu, J.Klose, T.Vago, F.Arnaud, C.A.Wang, Z.Khare, B.Rossmann, M.G.Chen, Z.Sun, L.Fang, Q.Kuhn, R.J.Rao, V.B.

(2026) Nat Commun 17

  • DOI: https://doi.org/10.1038/s41467-026-69106-8
  • Primary Citation Related Structures: 
    9MKB, 9MOF, 9MOG, 9MOH

  • PubMed Abstract: 

    The post-genome packaging mechanisms that govern the assembly of an infectious virion are poorly understood in bacteriophages and other viruses. Here, our near-atomic resolution cryo-EM structural analyses uncovered an assembly- and conformation-driven genome positioning mechanism in the tailed bacteriophage T4. We show that following headful packaging, which generates a pressurized head, a global conformational change occurs in the portal structure, probably triggering packaging termination and ejection of the packaging motor. Our high-resolution structures of the neck of the virion further show that the neck undergoes conformational changes upon docking of a pre-assembled tail onto the sealed neck, which then opens a genome-gate. Driven by the pressure of the packaged DNA, the genome travels through open neck channels, binds and compresses the resident tape-measure protein, and halts at the bottom of the second topmost disk of the tail tube. Pressure-suspended within the virion's innermost tunnel and secured by a baseplate plug, the genome remains poised to flow through the tunnel into a host cell upon receiving the host receptor recognition signal.


  • Organizational Affiliation
    • Department of Biological Sciences, Purdue University, West Lafayette, IN, USA. afokine@purdue.edu.

Macromolecule Content 

  • Total Structure Weight: 9,609.01 kDa 
  • Atom Count: 652,117 
  • Modeled Residue Count: 84,090 
  • Deposited Residue Count: 87,301 
  • Unique protein chains: 22

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
gp12, short tail fiber protein527Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for P10930 (Enterobacteria phage T4)
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UniProt GroupP10930
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
gp9, baseplate wedge tail fiber connector288Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SWG4 (Escherichia phage T4)
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UniProt GroupA0A7S9SWG4
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
gp11, baseplate wedge protein219Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SW18 (Escherichia phage T4)
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UniProt GroupA0A7S9SW18
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
gp10, baseplate wedge protein602Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for P10928 (Enterobacteria phage T4)
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
gp7, baseplate wedge protein1,032Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for P19061 (Enterobacteria phage T4)
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Reference Sequence
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Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
gp8, baseplate wedge protein334Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SVZ9 (Escherichia phage T4)
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Reference Sequence
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Entity ID: 7
MoleculeChains  Sequence LengthOrganismDetailsImage
gp18, tail sheath protein659Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SVW9 (Escherichia phage T4)
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UniProt GroupA0A7S9SVW9
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Reference Sequence
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Entity ID: 8
MoleculeChains  Sequence LengthOrganismDetailsImage
gp6, baseplate wedge protein660Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for P19060 (Enterobacteria phage T4)
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Reference Sequence
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Entity ID: 9
MoleculeChains  Sequence LengthOrganismDetailsImage
gp5, baseplate central spike proteinIE [auth gE],
JE [auth gG],
KE [auth gH]
575Escherichia phage T4Mutation(s): 0 
EC: 3.2.1.17
UniProt
Find proteins for A0A7S9SVH6 (Escherichia phage T4)
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UniProt GroupA0A7S9SVH6
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Reference Sequence
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Entity ID: 10
MoleculeChains  Sequence LengthOrganismDetailsImage
gp5.4, tip of the central spikeLE [auth gd]97Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SVS3 (Escherichia phage T4)
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Entity ID: 11
MoleculeChains  Sequence LengthOrganismDetailsImage
gp19, tail tube protein163Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SVI2 (Escherichia phage T4)
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Reference Sequence
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Entity ID: 12
MoleculeChains  Sequence LengthOrganismDetailsImage
gp27, baseplate hub proteinQF [auth iC],
RF [auth iD],
SF [auth iF]
391Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9XHP4 (Escherichia phage T4)
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UniProt GroupA0A7S9XHP4
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Reference Sequence
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Entity ID: 13
MoleculeChains  Sequence LengthOrganismDetailsImage
gp29, tape measure proteinTF [auth ja],
UF [auth jb],
VF [auth jc]
590Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for P13337 (Enterobacteria phage T4)
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Reference Sequence
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Entity ID: 14
MoleculeChains  Sequence LengthOrganismDetailsImage
gp53, baseplate wedge protein196Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9XI21 (Escherichia phage T4)
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Entity ID: 15
MoleculeChains  Sequence LengthOrganismDetailsImage
gp25, baseplate wedge protein132Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SW44 (Escherichia phage T4)
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Reference Sequence
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Entity ID: 16
MoleculeChains  Sequence LengthOrganismDetailsImage
gp48, baseplate protein364Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for A0A7S9SVT9 (Escherichia phage T4)
Explore A0A7S9SVT9 
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UniProt GroupA0A7S9SVT9
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Reference Sequence
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Entity ID: 17
MoleculeChains  Sequence LengthOrganismDetailsImage
gp54, baseplate protein320Escherichia phage T4Mutation(s): 0 
UniProt
Find proteins for P13341 (Enterobacteria phage T4)
Explore P13341 
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UniProt GroupP13341
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Reference Sequence
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Entity ID: 18
MoleculeChains  Sequence LengthOrganismDetailsImage
unassigned peptide A25Escherichia phage T4Mutation(s): 0 
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Entity ID: 19
MoleculeChains  Sequence LengthOrganismDetailsImage
unassigned peptide BAH [auth sQ],
BH [auth sT],
CH [auth sU]
18Escherichia phage T4Mutation(s): 0 
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Entity ID: 20
MoleculeChains  Sequence LengthOrganismDetailsImage
unassigned peptide CDH [auth tS],
EH [auth tX],
FH [auth tY]
10Escherichia phage T4Mutation(s): 0 
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Entity ID: 21
MoleculeChains  Sequence LengthOrganismDetailsImage
unassigned peptide DGH [auth uR],
HH [auth uV],
IH [auth uW]
7Escherichia phage T4Mutation(s): 0 
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Entity ID: 22
MoleculeChains  Sequence LengthOrganismDetailsImage
unassigned peptide EJH [auth vZ],
KH [auth va],
LH [auth vb]
9Escherichia phage T4Mutation(s): 0 
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.1_5286

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI081726

Revision History  (Full details and data files)

  • Version 1.0: 2026-01-28
    Type: Initial release
  • Version 1.1: 2026-08-12
    Changes: Data collection, Database references