MS3D structural elucidation of the HIV-1 packaging signal.

Proceedings of the National Academy of Sciences of the United States of America
Eizadora YuDaniele Fabris

Abstract

The structure of HIV-1 Psi-RNA has been elucidated by a concerted approach combining structural probes with mass spectrometric detection (MS3D), which is not affected by the size and crystallization properties of target biomolecules. Distance constraints from bifunctional cross-linkers provided the information required for assembling an all-atom model from the high-resolution coordinates of separate domains by triangulating their reciprocal placement in 3D space. The resulting structure revealed a compact cloverleaf morphology stabilized by a long-range tertiary interaction between the GNRA tetraloop of stemloop 4 (SL4) and the upper stem of stemloop 1 (SL1). The preservation of discrete stemloop structures ruled out the possibility that major rearrangements might produce a putative supersite with enhanced affinity for the nucleocapsid (NC) domain of the viral Gag polyprotein, which would drive genome recognition and packaging. The steric situation of single-stranded regions exposed on the cloverleaf structure offered a valid explanation for the stoichiometry exhibited by full-length Psi-RNA in the presence of NC. The participation of SL4 in a putative GNRA loop-receptor interaction provided further indications of the plasticit...Continue Reading

References

Jun 1, 1992·Virology·T HayashiH Shibuta
Aug 1, 1980·Proceedings of the National Academy of Sciences of the United States of America·D A Peattie, W Gilbert
May 24, 1994·Proceedings of the National Academy of Sciences of the United States of America·E SkripkinC Ehresmann
Oct 15, 1993·Proceedings of the National Academy of Sciences of the United States of America·F MajorR Cedergren
Jan 1, 1996·Progress in Nucleic Acid Research and Molecular Biology·B Berkhout
Sep 20, 1996·Science·J H CateJ A Doudna
Oct 1, 1996·Journal of Virology·B Berkhout, J L van Wamel
Dec 6, 1996·Science·R J Stern, M G Abdelsalam
Sep 23, 1998·Journal of Molecular Biology·L PappalardoP N Borer
Oct 3, 1998·Acta Crystallographica. Section D, Biological Crystallography·A T BrüngerG L Warren
Nov 5, 1999·Journal of Molecular Biology·I Tinoco, C Bustamante
Nov 27, 1999·Annual Review of Physical Chemistry·C L Hendrickson, M R Emmett
May 17, 2000·Proceedings of the National Academy of Sciences of the United States of America·M M YoungG Dollinger
Feb 24, 2001·RNA·H Huthoff, B Berkhout
Nov 29, 2001·Biochemistry·D J KerwoodP N Borer
Oct 22, 2002·Journal of Virology·Marc C JohnsonVolker M Vogt
Feb 1, 2003·Journal of Molecular Biology·Dana C LawrenceMichael F Summers
Feb 19, 2004·RNA·David E Draper
Sep 10, 2004·The Journal of Biological Chemistry·Jean-Christophe PaillartRoland Marquet
Oct 1, 2004·The Journal of Membrane Biology·P DelvaA Lechi
Nov 30, 2004·Journal of Molecular Biology·Eizadora T YuDaniele Fabris
Aug 1, 2006·Journal of the American Society for Mass Spectrometry·Qingrong ZhangDaniele Fabris
May 1, 2007·Journal of Molecular Biology·Kevin B TurnerDaniele Fabris

❮ Previous
Next ❯

Citations

Nov 10, 2009·Journal of the American Society for Mass Spectrometry·Daniele Fabris
Jun 10, 2011·Analytical Chemistry·D Fabris
Jan 24, 2012·Analytical Chemistry·Feng XianAlan G Marshall
Apr 17, 2012·Nature Methods·Feng DingNikolay V Dokholyan
Apr 28, 2010·Nucleic Acids Research·Eva Kühn-HölskenHenning Urlaub
Feb 14, 2012·Nucleic Acids Research·Jun-ichi SakuragiHironori Sato
May 26, 2010·RNA·Christine E HajdinKevin M Weeks
May 23, 2014·Journal of the American Society for Mass Spectrometry·Matteo ScalabrinDaniele Fabris
Aug 26, 2015·Viruses·Erik D OlsonKarin Musier-Forsyth
Jul 19, 2011·Journal of Molecular Biology·Kun LuMichael F Summers
May 8, 2010·Current Opinion in Structural Biology·Kevin M Weeks
Jul 22, 2010·Journal of Mass Spectrometry : JMS·Daniele Fabris, Eizadora T Yu
Aug 13, 2009·Mass Spectrometry Reviews·Lars KonermannXin Tong
May 3, 2014·RNA Biology·Marcin MagnusJanusz M Bujnicki
Jun 24, 2014·Virus Research·William A CantaraKarin Musier Forsyth
Feb 20, 2014·Proceedings of the National Academy of Sciences of the United States of America·Christopher P JonesKarin Musier-Forsyth
Jun 10, 2010·European Journal of Mass Spectrometry·Herbert Oberacher
Jan 24, 2019·Bioscience Reports·Almudena Ponce-SalvatierraJanusz M Bujnicki
Nov 8, 2019·Journal of Mass Spectrometry : JMS·Thomas KenderdineDaniele Fabris
Jun 15, 2021·Nucleic Acids Research·Alice SosicBarbara Gatto
Feb 22, 2018·ACS Chemical Neuroscience·Bhanushee SharmaGeorges Belfort
Oct 1, 2021·Chemical Reviews·Eric LargyValérie Gabelica
Dec 24, 2021·Mass Spectrometry Reviews·Thomas Kenderdine, Dan Fabris

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Journal of Molecular Biology
Eizadora T YuDaniele Fabris
Proceedings of the National Academy of Sciences of the United States of America
Christopher S BadorrekKevin M Weeks
© 2022 Meta ULC. All rights reserved