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Title: Mechanistic differences between HIV-1 and SIV nucleocapsid proteins and cross-species HIV-1 genomic RNA recognition

Abstract

The nucleocapsid (NC) domain of HIV-1 Gag is responsible for specific recognition and packaging of genomic RNA (gRNA) into new viral particles. This occurs through specific interactions between the Gag NC domain and the Psi packaging signal in gRNA. In addition to this critical function, NC proteins are also nucleic acid (NA) chaperone proteins that facilitate NA rearrangements during reverse transcription. Although the interaction with Psi and chaperone activity of HIV-1 NC have been well characterized in vitro, little is known about simian immunodeficiency virus (SIV) NC. Non-human primates are frequently used as a platform to study retroviral infection in vivo; thus, it is important to understand underlying mechanistic differences between HIV-1 and SIV NC.

Authors:
 [1];  [2];  [3];  [4];  [2]; ORCiD logo [5];  [2]; ORCiD logo [1]
  1. National Inst. of Health (NIH), Bethesda, MD (United States). Section on Viral Gene Regulation, Program in Genomics of Differentiation, Eunice Kennedy Shriver National Institute of Child Health and Human Development
  2. The Ohio State Univ., Columbus, OH (United States). Department of Chemistry and Biochemistry, Center for Retrovirus Research, and Center for RNA Biology
  3. Northeastern Univ., Boston, MA (United States). Department of Physics
  4. Frederick National Laboratory for Cancer Research, Frederick, MD (United States). AIDS and Cancer Virus Program, Leidos Biomedical Research, Inc.,
  5. Northeastern Univ., Boston, MA (United States). Department of Physics
Publication Date:
Research Org.:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
OSTI Identifier:
1626909
Grant/Contract Number:  
AC02-05CH11231; R01‑GM065056; R01‑GM072462; HHSN261200800001E; R01‑GM105404
Resource Type:
Accepted Manuscript
Journal Name:
Retrovirology
Additional Journal Information:
Journal Volume: 13; Journal Issue: 1; Journal ID: ISSN 1742-4690
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
Virology; HIV 1; SIV; Nucleocapsid proteins; Nucleic acid chaperone activity; Psi RNA packaging signal; Minus strand transfer; Small angle X ray scattering; Single molecule DNA stretching; Nucleic acid binding; Reverse transcription

Citation Formats

Post, Klara, Olson, Erik D., Naufer, M. Nabuan, Gorelick, Robert J., Rouzina, Ioulia, Williams, Mark C., Musier-Forsyth, Karin, and Levin, Judith G. Mechanistic differences between HIV-1 and SIV nucleocapsid proteins and cross-species HIV-1 genomic RNA recognition. United States: N. p., 2016. Web. doi:10.1186/s12977-016-0322-5.
Post, Klara, Olson, Erik D., Naufer, M. Nabuan, Gorelick, Robert J., Rouzina, Ioulia, Williams, Mark C., Musier-Forsyth, Karin, & Levin, Judith G. Mechanistic differences between HIV-1 and SIV nucleocapsid proteins and cross-species HIV-1 genomic RNA recognition. United States. https://doi.org/10.1186/s12977-016-0322-5
Post, Klara, Olson, Erik D., Naufer, M. Nabuan, Gorelick, Robert J., Rouzina, Ioulia, Williams, Mark C., Musier-Forsyth, Karin, and Levin, Judith G. Thu . "Mechanistic differences between HIV-1 and SIV nucleocapsid proteins and cross-species HIV-1 genomic RNA recognition". United States. https://doi.org/10.1186/s12977-016-0322-5. https://www.osti.gov/servlets/purl/1626909.
@article{osti_1626909,
title = {Mechanistic differences between HIV-1 and SIV nucleocapsid proteins and cross-species HIV-1 genomic RNA recognition},
author = {Post, Klara and Olson, Erik D. and Naufer, M. Nabuan and Gorelick, Robert J. and Rouzina, Ioulia and Williams, Mark C. and Musier-Forsyth, Karin and Levin, Judith G.},
abstractNote = {The nucleocapsid (NC) domain of HIV-1 Gag is responsible for specific recognition and packaging of genomic RNA (gRNA) into new viral particles. This occurs through specific interactions between the Gag NC domain and the Psi packaging signal in gRNA. In addition to this critical function, NC proteins are also nucleic acid (NA) chaperone proteins that facilitate NA rearrangements during reverse transcription. Although the interaction with Psi and chaperone activity of HIV-1 NC have been well characterized in vitro, little is known about simian immunodeficiency virus (SIV) NC. Non-human primates are frequently used as a platform to study retroviral infection in vivo; thus, it is important to understand underlying mechanistic differences between HIV-1 and SIV NC.},
doi = {10.1186/s12977-016-0322-5},
journal = {Retrovirology},
number = 1,
volume = 13,
place = {United States},
year = {Thu Dec 29 00:00:00 EST 2016},
month = {Thu Dec 29 00:00:00 EST 2016}
}

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Cited by: 10 works
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Figures / Tables:

Fig. 1 Fig. 1: Sequence and structural features of HIV‑1 and SIV NC proteins. a Schematic diagrams of NC proteins: HIV‑1 NL4‑3 NC and SIVmne NC. Basic residues are colored blue, acidic residues are colored red, the CCHC residues that coordinate the Zn2+ ions in the ZFs are colored gray, and themore » aromatic residue in each finger is underlined. The numbering is based on the sequence of the mature NC protein in each case. b Sequence alignment of HIV‑1 and SIV NC proteins. Coloring and underlining are the same as in (a). The boxes indicate the sequence comprising each ZF« less

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A protein ballet around the viral genome orchestrated by HIV-1 reverse transcriptase leads to an architectural switch: From nucleocapsid-condensed RNA to Vpr-bridged DNA
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Retrospective on the all-in-one retroviral nucleocapsid protein
journal, November 2014


Progress and outlook in structural biology of large viral RNAs
journal, November 2014


Nucleic-acid-chaperone activity of retroviral nucleocapsid proteins: significance for viral replication
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Comparative Structural Effects of HIV-1 Gag and Nucleocapsid Proteins in Binding to and Unwinding of the Viral RNA Packaging Signal
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Targeted binding of nucleocapsid protein transforms the folding landscape of HIV-1 TAR RNA
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Works referencing / citing this record:

Kinetics of Early Innate Immune Activation during HIV-1 Infection of Humanized Mice
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An RNA-binding compound that stabilizes the HIV-1 gRNA packaging signal structure and specifically blocks HIV-1 RNA encapsidation
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