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 9TXB | pdb_00009txb

Mature MPMV capsid hexamer structure from capsid-like particles


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9TXB

This is version 1.0 of the entry. See complete history. 

Literature

Retroviruses use different IP 6 binding mechanisms to alter the properties of their capsids.

Klarhof, J.O., Mallery, D.L., Stacey, J.C.V., Torre, D., Rumlova, M., Ruml, T., Briggs, J.A.G., James, L.C.

(2026) Nat Commun 17

  • DOI: https://doi.org/10.1038/s41467-026-76510-7
  • Primary Citation Related Structures: 
    9TX4, 9TX5, 9TX6, 9TX7, 9TX8, 9TX9, 9TXA, 9TXB

  • PubMed Abstract: 

    HIV-1 uses the metabolite inositol hexakisphosphate (IP 6 ) as a host factor to assemble its capsid, but whether this strategy is unique to lentiviruses or represents a common feature of retroviral capsids remains unclear. Here we show that IP 6 binding is conserved across diverse retroviruses but occurs through distinct capsid sites and mechanisms, and influences viral behaviour. In contrast to HIV-1, the beta-retrovirus Mason-Pfizer Monkey Virus (MPMV) and the gamma-retrovirus Murine Leukaemia Virus (MLV) bind IP 6 at the threefold lattice interface between capsomers rather than within capsomer pores. Cryo-EM structures of core-like particles reveal that two lysine residues from each capsomer coordinate IP 6 between either two discrete three-lysine rings (MPMV) or a single heterogeneous six-lysine ring (MLV). MPMV and MLV are largely insensitive to IP 6 availability in producer cells, but this binding mode renders them highly dependent on IP6 in target cells - the opposite of the dependency pattern of HIV-1. The way in which retroviruses use IP 6 to build their capsids alters their dependence on the metabolite at different stages of the replicative cycle and in key capsid behaviours, such as assembly and stability.


  • Organizational Affiliation: 
    • MRC Laboratory of Molecular Biology, Cambridge, UK.

Macromolecule Content 

  • Total Structure Weight: 146.03 kDa 
  • Atom Count: 9,444 
  • Modeled Residue Count: 1,212 
  • Deposited Residue Count: 1,332 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Capsid protein p27
A, B, C, D, E
A, B, C, D, E, F
222Mason-Pfizer monkey virusMutation(s): 0 
Gene Names: gag-pro-pol
UniProt
Find proteins for P07572 (Mason-Pfizer monkey virus)
Explore P07572 
Go to UniProtKB:  P07572
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07572
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.4.1

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (MRC, United Kingdom)United KingdomU105181010
Wellcome TrustUnited Kingdom200594/Z/16/Z
Wellcome TrustUnited Kingdom214344/A/18/Z

Revision History  (Full details and data files)

  • Version 1.0: 2026-10-07
    Type: Initial release