PMID: 9191067Jun 6, 1997Paper

Solution structure of r(gaggacug):d(CAGTCCTC) hybrid: implications for the initiation of HIV-1 (+)-strand synthesis

Journal of Molecular Biology
O Y FedoroffB R Reid

Abstract

The three-dimensional solution structure of the hybrid duplex r(gaggacug):d(CAGTCCTC) has been determined by two-dimensional NMR, distance geometry (DG), restrained molecular dynamics (rMD) and NOE back-calculation methods. This hybrid, consisting of a purine-rich RNA strand and a pyrimidine-rich DNA strand, is related to the polypurine (+)-strand primer formed after (-)-strand DNA synthesis and RNase H degradation of the viral RNA strand and contains the site of a specific cleavage by reverse transcription (RT) RNase H at the end of the HIV-1 polypurine tract. This polypurine primer is an important intermediate in the formation of virally encoded double-stranded DNA prior to HIV-1 retrovirus integration. The correct processing of this primer is vital in the life cycle of the human immunodeficiency virus type (HIV-1) retrovirus. The structure of the r(gaggacug):d(CAGTCCTC) hybrid, as determined in solution by NMR, is intermediate between canonical A-type and B-type double helices, and has mixed structural characteristics. It is quantitatively different from the previously determined solution structures of other RNA-DNA hybrids, particularly in the width and shape of the major groove, which is wider than the major groove of othe...Continue Reading

References

Apr 1, 1978·Nucleic Acids Research·P H Bolton, D R Kearns
Apr 14, 1992·Biochemistry·S G KimB R Reid
Nov 1, 1992·Journal of Biomolecular NMR·M PiottoV Sklenár
Dec 15, 1991·Proceedings of the National Academy of Sciences of the United States of America·H NakamuraK Morikawa
Feb 1, 1990·Journal of Virology·G X LuoJ Taylor
Jul 20, 1991·Journal of Molecular Biology·D A Pearlman, P A Kollman
Oct 15, 1991·Proceedings of the National Academy of Sciences of the United States of America·V P ChuprinaB R Reid
Jan 15, 1991·Biochemistry·V P ChuprinaB R Reid
Jul 5, 1990·Journal of Molecular Biology·A E TordaW F van Gunsteren
Apr 20, 1986·Journal of Molecular Biology·S ArnottH S Park
Dec 22, 1986·Nucleic Acids Research·H T SteelyR L Ratliff
Jul 5, 1985·Journal of Molecular Biology·J L LeroyM Guéron
Jun 28, 1972·Biochemical and Biophysical Research Communications·S Arnott, D W Hukins
Nov 1, 1984·Journal of Virology·J K SmithJ M Taylor
Jan 1, 1981·Proceedings of the National Academy of Sciences of the United States of America·S B Zimmerman, B H Pheiffer
Mar 1, 1995·Journal of Magnetic Resonance. Series B·L Zhu, B R Reid
Jul 14, 1995·Journal of Molecular Biology·F H Allain, G Varani
Jul 1, 1993·Proceedings of the National Academy of Sciences of the United States of America·W MetzgerH Heumann
Jul 1, 1993·Proceedings of the National Academy of Sciences of the United States of America·A Jacobo-MolinaP Clark
Jul 15, 1993·European Journal of Biochemistry·A N LaneT Brown

❮ Previous
Next ❯

Citations

Oct 24, 1998·The Journal of Biological Chemistry·J A RumbaughR A Bambara
Mar 24, 1999·Journal of Biomedical Science·B B Oude Essink, B Berkhout
Jul 29, 2000·The Journal of Biological Chemistry·S J SchultzJ J Champoux
Mar 28, 1998·The Journal of Biological Chemistry·C PalaniappanR A Bambara
Jun 29, 2004·The Journal of Biological Chemistry·Chandravanu DashStuart F J Le Grice
Mar 22, 2005·The Journal of Biological Chemistry·Hye Young Yi-Brunozzi, Stuart F J Le Grice
Apr 10, 1999·The Journal of Biological Chemistry·M GötteH Heumann
Nov 12, 2005·Journal of Virology·Angela Atwood-MooreHenry L Levin
Oct 12, 2001·The Journal of Biological Chemistry·M WilhelmF X Wilhelm
Apr 11, 2008·Nucleic Acids Research·Kevin B TurnerDaniele Fabris
Mar 5, 2002·The Journal of Biological Chemistry·Mamuka KvaratskheliaStuart F J Le Grice
Jan 17, 2008·The Journal of Physical Chemistry. B·U Deva Priyakumar, Alexander D Mackerell
Jun 6, 2003·Journal of the American Chemical Society·Brent M ZnoskoDouglas H Turner
Feb 27, 1999·Journal of Molecular Biology·P L BoyerS H Hughes
Nov 10, 2004·Journal of Molecular Biology·Sharon J SchultzJames J Champoux
Jul 25, 2006·Journal of Molecular Biology·Jennifer L OngPhilipp Holliger
Feb 12, 2008·Virus Research·Sharon J Schultz, James J Champoux
May 20, 2008·Biochimie·Nicholas N Shaw, Dev P Arya
Nov 22, 2008·Journal of Molecular Biology·Stefan G SarafianosEddy Arnold
Feb 27, 2008·Journal of the American Chemical Society·Agnes NoyModesto Orozco
Mar 31, 2005·Journal of the American Chemical Society·Agnes NoyModesto Orozco
May 23, 2002·Journal of the American Chemical Society·Michael PetersenJens Peter Jacobsen
Nov 25, 2005·Journal of the American Chemical Society·Hye Young Yi-BrunozziJohn P Marino

❮ 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.