8TY6 | pdb_00008ty6

Disulfide-stabilized HIV-1 CA hexamer in complex with PQBP1 Nt

• PDB DOI: https://doi.org/10.2210/pdb8TY6/pdb
• EM Map EMD-41711: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Human immunodeficiency virus 1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2023-08-24 Released: 2024-03-06 
• Deposition Author(s): Piacentini, J., Pornillos, O., Ganser-Pornillos, B.K.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Molecular Determinants of PQBP1 Binding to the HIV-1 Capsid Lattice.

Piacentini, J., Allen, D.S., Ganser-Pornillos, B.K., Chanda, S.K., Yoh, S.M., Pornillos, O.

(2024) J Mol Biology 436: 168409-168409

• PubMed: 38128824 
• DOI: https://doi.org/10.1016/j.jmb.2023.168409
• Primary Citation Related Structures: 
  8TY6


• PubMed Abstract: 
  

  Human immunodeficiency virus type 1 (HIV-1) stimulates innate immune responses upon infection, including cyclic GMP-AMP synthase (cGAS) signaling that results in type I interferon production. HIV-1-induced activation of cGAS requires the host cell factor polyglutamine binding protein 1 (PQBP1), an intrinsically disordered protein that bridges capsid recognition and cGAS recruitment. However, the molecular details of PQBP1 interactions with the HIV-1 capsid and their functional implications remain poorly understood. Here, we show that PQBP1 binds to HIV-1 capsids through charge complementing contacts between acidic residues in the N-terminal region of PQBP1 and an arginine ring in the central channel of the HIV-1 CA hexamer that makes up the viral capsid. These studies reveal the molecular details of PQBP1's primary interaction with the HIV-1 capsid and suggest that additional elements are likely to contribute to stable capsid binding.

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Organizational Affiliation: 
• University of Virginia, Department of Molecular Physiology & Biological Physics, Charlottesville, VA, USA.
The Scripps Research Institute, Department of Immunology and Microbiology, La Jolla, CA, USA.
University of Virginia, Department of Molecular Physiology & Biological Physics, Charlottesville, VA, USA; University of Utah, Department of Biochemistry, Salt Lake City, UT, USA.
The Scripps Research Institute, Department of Immunology and Microbiology, La Jolla, CA, USA. Electronic address: [e-mail].
University of Virginia, Department of Molecular Physiology & Biological Physics, Charlottesville, VA, USA; University of Utah, Department of Biochemistry, Salt Lake City, UT, USA. Electronic address: [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 152.77 kDa 
• Atom Count: 9,678 
• Modeled Residue Count: 1,260 
• Deposited Residue Count: 1,386 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein p24	A, B, C, D, E, F	231	Human immunodeficiency virus 1	Mutation(s): 4  Gene Names: gag
UniProt
Find proteins for P12493 (Human immunodeficiency virus type 1 group M subtype B (isolate NY5)) Explore P12493  Go to UniProtKB:  P12493

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-03-06 
Deposition Author(s): Piacentini, J., Pornillos, O., Ganser-Pornillos, B.K.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	U54-AI170856

Revision History  

• Version 1.0: 2024-03-06
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Data collection, Structure summary