Sites of 18S rRNA contacting mRNA 3' and 5' of the P site codon in human ribosome: a cross-linking study with mRNAs carrying 4-thiouridines at specific positions

Biochimica Et Biophysica Acta
Konstantin N BulyginGalina G Karpova

Abstract

Long synthetic mRNAs were used to study the positioning of the E site codon, the 2nd and 3rd nucleotides of the A site bound codon and a nucleotide 3' of this codon with respect to the 18S rRNA in the human 80S ribosome. The mRNAs contained a GAC triplet coding for Asp and a single 4-thiouridine residue (s(4)U) upstream or downstream of the GAC codon. In the presence of tRNA(Asp), the GAC codon of the mRNAs was targeted to the ribosomal P site thus placing s(4)U in one of the following positions -3, -2, -1, +5, +6 or +7 with respect to the first nucleotide of the P site bound codon. It was found that mRNAs that bore s(4)U in positions +5 to +7 cross-linked to the 18S rRNA nucleotides C1696, C1698 and 1820-1825, the distribution of cross-links among these targets depending on the position of s(4)U. Cross-links of mRNAs containing s(4)U in positions -3 to -1 were found in the region 1699-1704 of the 18S rRNA. In the absence of tRNA, all mRNAs cross-linked only to C1696 and C1698. Absence of the cross-linked nucleotides C1696 and C1698 in the case of mRNAs containing s(4)U in positions -3 to -1 confirmed that tRNA(Asp) actually phased the mRNA on the ribosome.

References

Jan 1, 1988·Methods in Enzymology·P L Wollenzien
Jan 1, 1997·Annual Review of Biochemistry·R Green, H F Noller
Feb 2, 1999·Journal of Molecular Biology·M S VanLoockS C Harvey
Sep 11, 1999·Science·S YoshizawaJ D Puglisi
May 8, 2001·Science·J M OgleV Ramakrishnan
Aug 21, 2001·Cell·G Z YusupovaH F Noller
Mar 23, 2002·Cell·V Ramakrishnan
May 22, 2003·Biochimica Et Biophysica Acta·Natalia DemeshkinaGalina Karpova
May 27, 2003·Trends in Biochemical Sciences·James M OgleV Ramakrishnan
Sep 9, 2006·Science·Maria SelmerV Ramakrishnan
Nov 30, 2006·RNA Biology·Maxim MolotkovGalina Karpova
May 10, 2008·The EMBO Journal·Andrey V PisarevTatyana V Pestova

❮ Previous
Next ❯

Citations

Sep 13, 2014·Computational Biology and Chemistry·Karim El Soufi, Christian J Michel
May 15, 2009·Biochimica Et Biophysica Acta·Michael Niepmann
Jan 20, 2012·Acta Biochimica Et Biophysica Sinica·Dmitri Graifer, Galina Karpova
Feb 6, 2020·Photochemistry and Photobiology·Nadejda I Rechkunova, Olga I Lavrik
Sep 25, 2019·Physical Chemistry Chemical Physics : PCCP·Xiaoran ZouChun-Yang Zhang

❮ 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.