Results 101 to 110 of about 8,924,942 (310)

RNA Thermodynamic Structural Entropy

PLOS ONE, 2015
Conformational entropy for atomic-level, three dimensional biomolecules is known experimentally to play an important role in protein-ligand discrimination, yet reliable computation of entropy remains a difficult problem. Here we describe the first two accurate and efficient algorithms to compute the conformational entropy for RNA secondary structures ...
Juan Antonio Garcia-Martin, Peter Clote
openaire   +5 more sources

Maf1-mediated repression of RNA polymerase III transcription inhibits tRNA degradation via RTD pathway [PDF]

, 2012
tRNA precursors, which are transcribed by RNA polymerase III, undergo end-maturation, splicing and base modifications. Hypomodified tRNAs, such as tRNAVal(AAC), lacking 7-methylguanosine and 5-methylcytidine modifications, are subject to degradation by a
Boguta, Magdalena, Turowski, Tomasz W., Karkusiewicz, Iwona, Kowal, J   +3 more
core   +1 more source

Structure and mechanism of HDV ribozymes revealing Lewis acid catalysis by a metal ion

Nature Communications
We have determined the molecular structure and investigated the catalytic mechanism of two ribozymes of the Hepatitis delta virus family, found in the nematode Caenorhabditis briggsae and virus Ackermannviridae.
Yuhang Luo, Xiaoxue Chen, Xiaowei Lin, Wenjian Liao, Bowen Xiao, Mengxiao Li, Zhaoji Qiu, Timothy J. Wilson, Zhichao Miao, Jia Wang, Lin Huang, David M. J. Lilley   +11 more
doaj   +1 more source

RNA STRAND: The RNA Secondary Structure and Statistical Analysis Database

BMC Bioinformatics, 2008
Background The ability to access, search and analyse secondary structures of a large set of known RNA molecules is very important for deriving improved RNA energy models, for evaluating computational predictions of RNA secondary structures and for a ...
Andronescu Mirela, Bereg Vera, Hoos Holger H, Condon Anne   +3 more
doaj   +1 more source

Tumour–host interactions in Drosophila: mechanisms in the tumour micro‐ and macroenvironment

Molecular Oncology, EarlyView.
This review examines how tumour–host crosstalk takes place at multiple levels of biological organisation, from local cell competition and immune crosstalk to organism‐wide metabolic and physiological collapse. Here, we integrate findings from Drosophila melanogaster studies that reveal conserved mechanisms through which tumours hijack host systems to ...
José Teles‐Reis, Tor Erik Rusten
wiley   +1 more source

Recognition of two distinct elements in the RNA substrate by the RNA-binding domain of the T. thermophilus DEAD box helicase Hera [PDF]

, 2013
DEAD box helicases catalyze the ATP-dependent destabilization of RNA duplexes. Whereas duplex separation is mediated by the helicase core shared by all members of the family, flanking domains often contribute to binding of the RNA substrate.
Wöhnert, Jens, Linden, Martin H., Rudolph, Markus G., Steimer, Lenz, Wurm, Jan Philip, Klostermeier, Dagmar, Linden, Martin H. (author), Klostermeier, Dagmar (author), Wurm, Jan Philip (author), Steimer, Lenz (author), Rudolph, Markus G. (author), Wöhnert, Jens (author)   +11 more
core   +1 more source

Reconstructing phylogeny from RNA secondary structure via simulated evolution

, 2002
DNA sequences of genes encoding functional RNA molecules (e.g., ribosomal RNAs) are commonly used in phylogenetics (i.e. to infer evolutionary history).
Fischer, Will, Geard, Nicholas
core   +1 more source

Transcriptional profiling of circulating extracellular vesicles from prebiopsy prostate cancer patients

Molecular Oncology, EarlyView.
RNA profiling of circulating extracellular vesicles (EVs) from blood samples of men undergoing prostate biopsy identifies transcripts associated with clinically significant prostate cancer. Integrative analysis with public tumor datasets links EV‐derived gene signatures to tumor stage and progression‐free survival, highlighting CASP3, XRCC2, and RIT1 ...
Stefan Werner, Pierre Tennstedt, Randi C. Pose, Christian Müller, Katharina Besler, Svenja Schneegans, Malik Alawi, Marie C. Roesch, Sven Peine, Desiree Bonci, Joanna Budna‐Tukan, Evi Lianidou, Catherine Alix‐Panabières, Derya Tilki, Klaus Pantel   +14 more
wiley   +1 more source

Pseudoknots in RNA secondary structures

Proceedings of the fourth annual international conference on Computational molecular biology, 2000
<p>RNA molecules are sequences of nucleotides that serve as more than mere intermediaries between DNA and proteins, e.g. as catalytic molecules. Computational prediction of RNA secondary structure is among the few structure prediction problems that can be solved satisfactorily in polynomial time. Most work has been done to predict structures that
Rune B. Lyngsø, Christian N. S. Pedersen   +1 more
openaire   +2 more sources

New Era of Studying RNA Secondary Structure and Its Influence on Gene Regulation in Plants

Frontiers in Plant Science, 2018
The dynamic structure of RNA plays a central role in post-transcriptional regulation of gene expression such as RNA maturation, degradation, and translation.
Xiaofei Yang, Minglei Yang, Hongjing Deng, Hongjing Deng, Hongjing Deng, Yiliang Ding   +5 more
doaj   +1 more source