Proposing a new RNA quadruplex structure: j-motif, with possible links to neural development
| Autor: | Mika Kinoshita, Hideyuki Okano, Shingo Nakamura, Hirotaka James Okano, Mana Igarashi |
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| Rok vydání: | 2014 |
| Předmět: |
Cyclin-Dependent Kinase Inhibitor p21
Models Molecular Base pair Gene Expression RNA-binding protein Computational biology Biology Biochemistry Heterogeneous-Nuclear Ribonucleoprotein K Mice Transcription (biology) Animals Humans RNA Messenger Nucleotide Motifs Base Pairing Molecular Biology Gene Genetics Intron RNA General Medicine Nucleic Acid Conformation Neural development |
| Zdroj: | The Journal of Biochemistry. 155:385-392 |
| ISSN: | 1756-2651 0021-924X |
| DOI: | 10.1093/jb/mvu013 |
| Popis: | An RNA-binding protein, hnRNP K, has been studied extensively because of its involvement in neural development through the post-transcriptional regulation of its downstream target genes; however, its binding mode remains unclear. According to structural features of the binding sites, we have presumed the existence of possible unique structures 'j-motifs' that are similar to known i-motifs, the difference being that the initial cluster comprises successive U nucleic acids instead of C. It was suspected that the motifs could be recognized by hnRNP K to regulate the translation levels of target proteins, however, there were virtually no methods to verify their existence except computational methods: regular expression searches and theoretical molecular orbital (MO) calculations. Here, we first show a list of 16 genes having j-motif-like sequences we discovered under refined search conditions. The list was highly related to neural development from both subjective and objective aspects. Additionally, MO calculations revealed the similarity of non-canonical base pairs found in i- and j-motifs qualitatively, leading to a proposal of the possible existence of the j-motifs. When taken into consideration, it was indicated that the j-motifs could be formed and play some role in the neural development. |
| Databáze: | OpenAIRE |
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