Cargando…

Computational modeling of RNA 3D structures, with the aid of experimental restraints

In addition to mRNAs whose primary function is transmission of genetic information from DNA to proteins, numerous other classes of RNA molecules exist, which are involved in a variety of functions, such as catalyzing biochemical reactions or performing regulatory roles. In analogy to proteins, the f...

Descripción completa

Detalles Bibliográficos
Autores principales:	Magnus, Marcin, Matelska, Dorota, Łach, Grzegorz, Chojnowski, Grzegorz, Boniecki, Michal J, Purta, Elzbieta, Dawson, Wayne, Dunin-Horkawicz, Stanislaw, Bujnicki, Janusz M
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Landes Bioscience 2014
Materias:	Review
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4152360/ https://www.ncbi.nlm.nih.gov/pubmed/24785264 http://dx.doi.org/10.4161/rna.28826

Ejemplares similares

S6:S18 ribosomal protein complex interacts with a structural motif present in its own mRNA
por: Matelska, Dorota, et al.
Publicado: (2013)

Loss of Conserved Noncoding RNAs in Genomes of Bacterial Endosymbionts
por: Matelska, Dorota, et al.
Publicado: (2016)

SimRNAweb: a web server for RNA 3D structure modeling with optional restraints
por: Magnus, Marcin, et al.
Publicado: (2016)

Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases
por: Tkaczuk, Karolina L, et al.
Publicado: (2007)

RNA 3D structure modeling by fragment assembly with small-angle X-ray scattering restraints
por: Chojnowski, Grzegorz, et al.
Publicado: (2023)

The yfhQ gene of Escherichia coli encodes a tRNA:Cm32/Um32 methyltransferase
por: Purta, Elzbieta, et al.
Publicado: (2006)

Phylogenomic analysis of the GIY-YIG nuclease superfamily
por: Dunin-Horkawicz, Stanislaw, et al.
Publicado: (2006)

MODOMICS: a database of RNA modification pathways. 2008 update
por: Czerwoniec, Anna, et al.
Publicado: (2009)

MetalionRNA: computational predictor of metal-binding sites in RNA structures
por: Philips, Anna, et al.
Publicado: (2012)

Genome-wide survey of codons under diversifying selection in a highly recombining bacterial species, Helicobacter pylori
por: Yahara, Koji, et al.
Publicado: (2016)

RNArchitecture: a database and a classification system of RNA families, with a focus on structural information
por: Boccaletto, Pietro, et al.
Publicado: (2018)

SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction
por: Boniecki, Michal J., et al.
Publicado: (2016)

MODOMICS: a database of RNA modification pathways
por: Dunin-Horkawicz, Stanislaw, et al.
Publicado: (2006)

RRMdb—an evolutionary-oriented database of RNA recognition motif sequences
por: Nowacka, Martyna, et al.
Publicado: (2019)

Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes
por: Machnicka, Magdalena A., et al.
Publicado: (2015)

The RNase H-like superfamily: new members, comparative structural analysis and evolutionary classification
por: Majorek, Karolina A., et al.
Publicado: (2014)

MODOMICS: a database of RNA modification pathways—2013 update
por: Machnicka, Magdalena A., et al.
Publicado: (2013)

SupeRNAlign: a new tool for flexible superposition of homologous RNA structures and inference of accurate structure-based sequence alignments
por: Piątkowski, Paweł, et al.
Publicado: (2017)

RIBER/DIBER: a software suite for crystal content analysis in the studies of protein–nucleic acid complexes
por: Chojnowski, Grzegorz, et al.
Publicado: (2012)

RNA Bricks—a database of RNA 3D motifs and their interactions
por: Chojnowski, Grzegorz, et al.
Publicado: (2014)

RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures
por: Miao, Zhichao, et al.
Publicado: (2015)

Delineation of structural domains and identification of functionally important residues in DNA repair enzyme exonuclease VII
por: Poleszak, Katarzyna, et al.
Publicado: (2012)

LigandRNA: computational predictor of RNA–ligand interactions
por: Philips, Anna, et al.
Publicado: (2013)

ClaRNA: a classifier of contacts in RNA 3D structures based on a comparative analysis of various classification schemes
por: Waleń, Tomasz, et al.
Publicado: (2014)

RNA methyltransferases involved in 5′ cap biosynthesis
por: Byszewska, Magdalena, et al.
Publicado: (2015)

Brickworx builds recurrent RNA and DNA structural motifs into medium- and low-resolution electron-density maps
por: Chojnowski, Grzegorz, et al.
Publicado: (2015)

Structural analysis of human 2′-O-ribose methyltransferases involved in mRNA cap structure formation
por: Smietanski, Miroslaw, et al.
Publicado: (2014)

localpdb—a Python package to manage protein structures and their annotations
por: Ludwiczak, Jan, et al.
Publicado: (2022)

Rational engineering of sequence specificity in R.MwoI restriction endonuclease
por: Skowronek, Krzysztof, et al.
Publicado: (2012)

NPDock: a web server for protein–nucleic acid docking
por: Tuszynska, Irina, et al.
Publicado: (2015)

The Structure and Topology of α-Helical Coiled Coils
por: Lupas, Andrei N., et al.
Publicado: (2017)

A composite double-/single-stranded RNA-binding region in protein Prp3 supports tri-snRNP stability and splicing
por: Liu, Sunbin, et al.
Publicado: (2015)

RNA and protein 3D structure modeling: similarities and differences
por: Rother, Kristian, et al.
Publicado: (2011)

Specific interaction of zinc finger protein Com with RNA and the crystal structure of a self-complementary RNA duplex recognized by Com
por: Nowacka, Martyna, et al.
Publicado: (2019)

Type II restriction endonuclease R.Hpy188I belongs to the GIY-YIG nuclease superfamily, but exhibits an unusual active site
por: Kaminska, Katarzyna H, et al.
Publicado: (2008)

Functional specialization of domains tandemly duplicated within 16S rRNA methyltransferase RsmC
por: Sunita, S., et al.
Publicado: (2007)

Insights into the structure, function and evolution of the radical-SAM 23S rRNA methyltransferase Cfr that confers antibiotic resistance in bacteria
por: Kaminska, Katarzyna H., et al.
Publicado: (2010)

pLM-BLAST: distant homology detection based on direct comparison of sequence representations from protein language models
por: Kaminski, Kamil, et al.
Publicado: (2023)

RNAProbe: a web server for normalization and analysis of RNA structure probing data
por: Wirecki, Tomasz K, et al.
Publicado: (2020)

Sequence-specific cleavage of dsRNA by Mini-III RNase
por: Głów, Dawid, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_fbub9o3djno9ol86usl2b9qq4i