7VII

cryoEM structure of bacteriophage lambda capsid at 5.6 Angstrom

  • Classification: VIRUS
  • Organism(s): Lambdavirus lambda
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2021-09-27 Released: 2021-12-15 
  • Deposition Author(s): Wang, J.W.
  • Funding Organization(s): National Natural Science Foundation of China (NSFC), Ministry of Science and Technology (MoST, China)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structural basis of bacteriophage lambda capsid maturation.

Wang, C.Zeng, J.Wang, J.

(2022) Structure 30: 637

  • DOI: https://doi.org/10.1016/j.str.2021.12.009
  • Primary Citation of Related Structures:  
    7VI9, 7VIA, 7VII, 7VIK

  • PubMed Abstract: 

    Bacteriophage lambda is an excellent model system for studying capsid assembly of double-stranded DNA (dsDNA) bacteriophages, some dsDNA archaeal viruses, and herpesviruses. HK97 fold coat proteins initially assemble into a precursor capsid (procapsid) and subsequent genome packaging triggers morphological expansion of the shell. An auxiliary protein is required to stabilize the expanded capsid structure. To investigate the capsid maturation mechanism, we determined the cryo-electron microscopy structures of the bacteriophage lambda procapsid and mature capsid at 3.88 Å and 3.76 Å resolution, respectively. Besides primarily rigid body movements of common features of the major capsid protein gpE, large-scale structural rearrangements of other domains occur simultaneously. Assembly of intercapsomers within the procapsid is facilitated by layer-stacking effects at 3-fold vertices. Upon conformational expansion of the capsid shell, the missing top layer is fulfilled by cementing the gpD protein against the internal pressure of DNA packaging. Our structures illuminate the assembly mechanisms of dsDNA viruses.


  • Organizational Affiliation

    State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, P. R. China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Major capsid protein
A, B, C, D, E
A, B, C, D, E, F, G
341Lambdavirus lambdaMutation(s): 0 
Gene Names: Elambdap08
UniProt
Find proteins for P03713 (Escherichia phage lambda)
Explore P03713 
Go to UniProtKB:  P03713
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03713
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid decoration protein
H, I, J, K, L
H, I, J, K, L, M, N
110Lambdavirus lambdaMutation(s): 0 
Gene Names: Dlambdap07
UniProt
Find proteins for P03712 (Escherichia phage lambda)
Explore P03712 
Go to UniProtKB:  P03712
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03712
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2021-12-15 
  • Deposition Author(s): Wang, J.W.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32171190
Ministry of Science and Technology (MoST, China)China2016YFA0501103

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-15
    Type: Initial release
  • Version 1.1: 2022-01-19
    Changes: Database references
  • Version 1.2: 2022-01-26
    Changes: Database references
  • Version 1.3: 2022-04-27
    Changes: Database references, Derived calculations
  • Version 1.4: 2024-06-19
    Changes: Data collection