Results 61 to 70 of about 4,240,750 (265)

Protein-RNA interactions: a structural analysis [PDF]

, 2001
A detailed computational analysis of 32 protein-RNA complexes is presented. A number of physical and chemical properties of the intermolecular interfaces are calculated and compared with those observed in protein-double-stranded DNA and protein-single ...
Daley, DT, Berman, HM, Luscombe, NM, Helen M Berman (10123868), Susan Jones (4079), Thornton, JM, David T A Daley (16115222), Janet M Thornton (16060073), Jones, S, Nicholas M Luscombe (8114756)   +9 more
core  

High-resolution NMR structure of an RNA model system : the 14-mer cUUCGg tetraloop hairpin RNA [PDF]

, 2010
We present a high-resolution nuclear magnetic resonance (NMR) solution structure of a 14-mer RNA hairpin capped by cUUCGg tetraloop. This short and very stable RNA presents an important model system for the study of RNA structure and dynamics using NMR ...
Nozinovic, Senada, Fürtig, Boris, Jonker, Hendrik R. A., Schwalbe, Harald (Prof. Dr.), Richter, Christian   +4 more
core   +1 more source

Ligand‐dependent transcriptional heterogeneity in cell cycle gene expression delays G1/S entry

FEBS Letters, EarlyView.
EGF and HRG induce distinct G1/S progression programs in ErbB2‐amplified BT474 breast cancer cells. Despite activating the potent ErbB2–ErbB3 heterodimer, HRG does not accelerate cell‐cycle entry. Instead, EGF promotes earlier restriction‐point passage via ERK–FOS signaling, whereas HRG activates the AKT–MYC axis, driving transcriptional heterogeneity ...
Ririn Rahmala Febri, Ayaka Nagasato‐Ichikawa, Keita Iida, Shuhei Kimura, Akira Imamoto, Mariko Okada   +5 more
wiley   +1 more source

Long-distance RNA–RNA interactions shape dynamic RNA architectures and functional states in plant positive-strand RNA viruses

Frontiers in Microbiology
The genomes of positive-strand RNA [(+)ssRNA] viruses function as dynamic RNA molecules that participate in multiple, sometimes competing, processes during infection, including translation, genome replication, subgenomic RNA (sgRNA) transcription, and ...
Deya Wang, Haoran Wu, Xianping Zhang, Qingle Chang, Xuefeng Yuan   +4 more
doaj   +1 more source

Diverging affinity of tospovirus RNA silencing suppressor proteins, NSs, for various RNA duplex molecules [PDF]

, 2010
The tospovirus NSs protein was previously shown to suppress the antiviral RNA silencing mechanism in plants. Here the biochemical analysis of NSs proteins from different tospoviruses, using purified NSs or NSs containing cell extracts, is described.
Kormelink, R.J.M., Rik Huismann, Esther Schnettler, Rob Goldbach, Goldbach, R., Marcel Prins, Goldbach, R.W., Kormelink, R., Hemmes, H., Prins, M., Huismann, R., Hans Hemmes, Huisman, R., Hemmes, J.C., Schnettler, E., Richard Kormelink, Prins, M.W.   +16 more
core   +1 more source

Formamide significantly enhances the efficiency of chemical adenylation of RNA sequencing ligation adaptors [PDF]

, 2023
Preadenylated single-stranded DNA ligation adaptors are essential reagents in many next generation RNA sequencing library preparation protocols. These oligonucleotides can be adenylated enzymatically or chemically.
Watts, Jonathan K, Hildebrand, Samuel R, Hedger, Adam K, Khvorova, Anastasia, Yamada, Ken   +4 more
core   +1 more source

Synergistic perspectives—How single‐molecule biophysics complement biochemical understanding

FEBS Letters, EarlyView.
In this review, we discuss how ensemble biochemistry and single‐molecule approaches are complementary, outline commonly used single‐molecule techniques, and illustrate their relevance through two representative case studies: chromatin organization by SMC complexes and pathway choice during DNA double‐strand break repair.
Sara De Bragança, Eline L. Jansen, Jorine M. Eeftens   +2 more
wiley   +1 more source

Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics

, 2008
The thermodynamics of RNA-RNA interaction consists of two components: the energy necessary to make a potential binding region accessible, i.e. unpaired, and the energy gained from the base pairing of the two interaction partners. We show here that both components can be efficiently computed using an improved variant of RNAup. The method is then applied
Ulrike Mückstein, Hakim Tafer, Stephan H. Bernhart, Maribel Hernandez-Rosales, Jörg Vogel 0002, Peter F. Stadler, Ivo L. Hofacker   +6 more
openaire   +4 more sources

Base-specific spin-labeling of RNA for structure determination [PDF]

, 2007
To facilitate the measurement of intramolecular distances in solvated RNA systems, a combination of spin-labeling, electron paramagnetic resonance (EPR), and molecular dynamics (MD) simulation is presented. The fairly rigid spin label 2,2,5,5-tetramethyl-
Olav Schiemann, Mu, Yuguang, Prisner, Thomas F., Stock, G., Engels, J.W., Prisner, TF., Thomas F. Prisner, Engels, Joachim W. (Prof. Dr.), Stock, Gerhard, Piton, N., Schiemann, Olav, Gerhard Stock, Nelly Piton, Piton, Nelly, Mu, Y., Yuguang Mu, Joachim W. Engels   +16 more
core   +1 more source

Translophagy—A potential link between autophagy impairment and translational errors

FEBS Letters, EarlyView.
Neurodegenerative diseases are characterised by the accumulation of abnormal proteins and protein aggregates, but their origin often remains unknown. We propose that selective autophagy removes damaged protein‐making machinery, preventing errors during protein synthesis.
Mykola V. Korolchuk, Gailing Ma, Robin Antrobus, Diego Manni, Marco Trevisan‐Herraz, Mustafa Khwaja, Max Brown, Gavin D. Richardson, Masaaki Komatsu, Daniel Erskine, Viktor I. Korolchuk, Tetsushi Kataura   +11 more
wiley   +1 more source