title: RiceRBP: a database of experimentally identified RNA-binding proteins in Oryza sativa L.
abstract: RNA-binding proteins play critical roles at multiple steps during gene expression, including mRNA transport and translation. mRNA transport is particularly important in rice (Oryza sativa L.) in order to ensure the proper localization of the prolamine and glutelin seed storage proteins. However, relatively little information is available about RNA-binding proteins that have been isolated or characterized in plants. The RiceRBP database is a novel resource for the analysis of RNA-binding proteins in rice. RiceRBP contains 257 experimentally identified RNA-binding proteins, which are derived from at least 221 distinct rice genes. Many of the identified proteins catalogued in RiceRBP had not previously been annotated or predicted to bind RNA. RiceRBP provides tools to facilitate the analysis of the identified RNA-binding proteins, including information about predicted protein domains, phylogenetic relationships, and expression patterns of the identified genes. Importantly, RiceRBP also contains tools to search and analyze predicted RNA-binding protein orthologs in other plant species. We anticipate that the data and analysis tools provided by RiceRBP should facilitate the study of plant RNA-binding proteins. RiceRBP is available at http://www.bioinformatics2.wsu.edu/RiceRBP.
authors.affiliation: School of Molecular Biosciences and Center for Reproductive Biology, Washington State University, Pullman, WA 99164, USA.
authors.forename: Robert T
authors.initials: RT
authors.lastname: Morris
authors.forename: Kelly A
authors.initials: KA
authors.lastname: Doroshenk
authors.forename: Andrew J
authors.initials: AJ
authors.lastname: Crofts
authors.forename: Nicholas
authors.initials: N
authors.lastname: Lewis
authors.forename: Thomas W
authors.initials: TW
authors.lastname: Okita
authors.forename: John J
authors.initials: JJ
authors.lastname: Wyrick
mesh_terms: D019295:Computational Biology; D030541:Databases, Genetic; D030562:Databases, Protein; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D018745:Genome, Plant; D001467:Hordeum / Q000235:genetics / Q000378:metabolism; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D013058:Mass Spectrometry; D020411:Oligonucleotide Array Sequence Analysis; D012275:Oryza / Q000235:genetics* / Q000378:metabolism; D010802:Phylogeny; D010940:Plant Proteins / Q000032:analysis / Q000235:genetics / Q000378:metabolism; D017434:Protein Structure, Tertiary; D018749:RNA, Plant / Q000378:metabolism; D016601:RNA-Binding Proteins / Q000032:analysis* / Q000235:genetics* / Q000378:metabolism; D012639:Seeds / Q000235:genetics / Q000378:metabolism; D012984:Software; D045868:Sorghum / Q000235:genetics / Q000378:metabolism; D014908:Triticum / Q000235:genetics / Q000378:metabolism; D014584:User-Computer Interface; D003313:Zea mays / Q000235:genetics / Q000378:metabolism
chemical_list: D010940:Plant Proteins; D018749:RNA, Plant; D016601:RNA-Binding Proteins