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RNA-binding protein database : ウィキペディア英語版 | RNA-binding protein database The RNA-binding Proteins Database (RBPDB) is a biological database of RNA-binding protein specificities that includes experimental observations of RNA-binding sites. The experimental results included are both in vitro and in vivo from primary literature. It includes four metazoan species which are Homo sapiens, Mus musculus, Drosophila melanogaster and Caenorhabditis elegans. RNA-binding domains included in this database are RNA recognition motif, K homology, CCCH zinc finger and more domains. Until today, 1171 RNA-binding proteins and experiments are included in this database. ==Background Informations about RNA Binding Protein==
Transcription and translation processes are different in prokaryotes and eukaryotes. Unlike prokaryotes, these two precesses occur separately in eukaryote’s nucleus and cytoplasm. Because of this, eukaryotes apply a strategy called post-transcriptional modification which includes splicing, editing and polyadenylation to process the pre-mRNA. RNA-binding proteins ( RBPs ) play critical role during this process. All RBPs can bind to RNA depends on different specificities and affinities. RBPs contain at least one RNA-binding domains and usually they have multiple binding domains. RNA-binding domain (RBD, also known as RNP domain and RNA recognition motif, RRM), K-homology (KH) domain (type I and type II), RGG (Arg-Gly-Gly) box, Sm domain; DEAD/DEAH box, zinc finger (ZnF, mostly C-x8-X-x5-X-x3-H), double stranded RNA-binding domain (dsRBD), cold-shock domain; Pumilio/FBF (PUF or Pum-HD) domain, and the Piwi/Argonaute/Zwille (PAZ) domain have been well characterized. RBPs are constructed by multiple binding domains. These domains contain a few basic modular units. Comparing with a single motif, RBPs can recognize a much longer stretch of nucleic acids with those multiple motifs. Meanwhile, RBPs bind to RNA by forming weak interactions. The weak interaction surface is largely increased by these motifs. As the result, RBPs can bind RNA with higher specificity and affinity than single domain. RNA-binding protein database has three main specific categories. They are RNA recognition motif (RRM), K-Homology domain (KH domain) and zinc fingers.
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