Results 11 to 20 of about 7,623,726 (294)

Protein-RNA interactions: a structural analysis [PDF]

Nucleic Acids Research, 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   +6 more sources

RNAproDB: A Webserver and Interactive Database for Analyzing Protein-RNA Interactions. [PDF]

J Mol Biol
We present RNAproDB (https://rnaprodb.usc.edu/), a new webserver, analysis pipeline, database, and highly interactive visualization tool, designed for protein-RNA complexes, and applicable to all forms of nucleic acid containing structures. RNAproDB computes several mapping schemes to place nucleic acid components and present protein-RNA interactions ...
Mitra R, Cohen AS, Tang WY, Hosseini H, Hong Y, Berman HM, Rohs R.   +6 more
europepmc   +4 more sources

RBPBind: Quantitative Prediction of Protein-RNA Interactions [PDF]

Journal of Molecular Biology, 2022
Summary: We introduce RBPBind, a web-based tool for the quantitative prediction of RNA-protein interactions. Given a user-specified RNA and a protein selected from a set of several common RNA-binding proteins, RBPBind computes the binding curve and effective binding constant of the reaction in question. The server also computes the probability that, at
Gaither, Jeff, Lin, Yi-Hsuan, Bundschuh, Ralf   +2 more
openaire   +3 more sources

Quantitative analysis of protein-RNA interactions in fission yeast. [PDF]

STAR Protoc, 2022
Characterizing the interactions between RNAs and proteins in vivo is key to better understand how organisms regulate gene expression. Here, we describe a robust and quantitative protocol to measure specific RNA-protein interactions in a native context using RNA immunoprecipitation (RIP).
Elías-Villalobos A, Duncan C, Mata J, Helmlinger D.   +3 more
europepmc   +8 more sources

PRD: A protein–RNA interaction database [PDF]

Bioinformation, 2012
Although protein-RNA interactions (PRIs) are involved in various important cellular processes, compiled data on PRIs are still limited. This contrasts with protein-protein interactions, which have been intensively recorded in public databases and subjected to network level analysis.
Fujimori, Shigeo, Hino, Katsuya, Saito, Ayumu, Miyano, Satoru, Miyamoto-Sato, Etsuko   +4 more
openaire   +2 more sources

Transient Protein-RNA Interactions Guide Nascent Ribosomal RNA Folding. [PDF]

Cell, 2019
Duss O, Stepanyuk GA, Puglisi JD, Williamson JR.   +3 more
europepmc   +2 more sources

Novel endoribonucleases as central players in various pathways of eukaryotic RNA metabolism [PDF]

, 2010
For a long time it has been assumed that the decay of RNA in eukaryotes is mainly carried out by exoribonucleases, which is in contrast to bacteria, where endoribonucleases are well documented to initiate RNA degradation.
Tomecki, Rafał, Dziembowski, Andrzej
core   +3 more sources

Decoding the role of the RNA binding activity of p53 [PDF]

, 2022
p53 is a key tumour suppressor, mutated in over half of cancers. p53’s ability to form extensive protein interactions, along with its function as a sequence-specific transcription factor, are well documented due to their roles in canonical p53 tumour ...
Moore, Samantha Louise
core   +1 more source

Predictions of protein–RNA interactions

WIREs Computational Molecular Science, 2012
AbstractRibonucleoprotein interactions play important roles in a wide variety of cellular processes, ranging from transcriptional and posttranscriptional regulation of gene expression to host defense against pathogens. High throughput experiments to identify RNA–protein interactions provide information about the complexity of interaction networks, but ...
Cirillo D., Agostini F., Tartaglia G. G.
openaire   +1 more source

High-throughput characterization of protein-RNA interactions [PDF]

Briefings in Functional Genomics, 2014
RNA-binding proteins (RBPs) are important regulators of eukaryotic gene expression. Genomes typically encode dozens to hundreds of proteins containing RNA-binding domains, which collectively recognize diverse RNA sequences and structures. Recent advances in high-throughput methods for assaying the targets of RBPs in vitro and in vivo allow large-scale ...
Cook, Kate B., Hughes, Timothy R., Morris, Quaid D.   +2 more
openaire   +2 more sources