Structure, backbone dynamics and interactions with RNA of the C-terminal RNA-binding domain of a mouse neural RNA-binding protein, Musashi1

Takashi Nagata, Reisuke Kanno, Yasuyuki Kurihara, Seiichi Uesugi, Takao Imai, Shinichi Sakakibara, Hideyuki Okano, Masato Katahira

Research output: Contribution to journalArticle

39 Citations (Scopus)

Abstract

Musashi1 is an RNA-binding protein abundantly expressed in the developing mouse central nervous system. Its restricted expression in neural precursor cells suggests that it is involved in the regulation of asymmetric cell division. Musashi1 contains two ribonucleoprotein (RNP)-type RNA-binding domains (RBDs), RBD1 and RBD2. Our previous studies showed that RBD1 alone binds to RNA, while the binding of RBD2 is not detected under the same conditions. Joining of RBD2 to RBD1, however, increases the affinity to greater than that of RBD1 alone, indicating that RBD2 contributes to RNA-binding. We have determined the three-dimensional solution structure of the C-terminal RBD (RBD2) of Musashi1 by NMR. It folds into a compact up structure comprising a four-stranded antiparallel β-sheet packed against two α-helices, which is characteristic of RNP-type RBDs. Special structural features of RBD2 include a β-bulge in β2 and a shallow twist of the β-sheet. The smaller 1H-15N nuclear Overhauser enhancement values for the residues of loop 3 between β2 and β3 suggest that this loop is flexible in the time-scale of nano- to picosecond order. The smaller 15N T2 values for the residues around the border between α2 and the following loop (loop 5) suggest this region undergoes conformational exchange in the milli- to microsecond time-scale. Chemical shift perturbation analysis indicated that RBD2 binds to an RNA oligomer obtained by in vitro selection under the conditions for NMR measurements, and thus the nature of the weak RNA-binding of RBD2 was successfully characterized by NMR, which is otherwise difficult to assess. Mainly the residues of the surface composed of the four-stranded β-sheet, loops and C-terminal region are involved in the interaction. The appearance of side-chain NH proton resonances of arginine residues of loop 3 and imino proton resonances of RNA bases upon complex formation suggests the formation of intermolecular hydrogen bonds. The structural arrangement of the rings of the conserved aromatic residues of β2 and β3 is suitable for stacking interaction with RNA bases, known to be one of the major protein-RNA interactions, but a survey of the perturbation data suggested that the stacking interaction is not ideally achieved in the complex, which may be related to the weaker RNA-binding of RBD2.

Original languageEnglish
Pages (from-to)315-330
Number of pages16
JournalJournal of Molecular Biology
Volume287
Issue number2
DOIs
Publication statusPublished - 1999 Mar 26
Externally publishedYes

Fingerprint

RNA-Binding Proteins
RNA
Ribonucleoproteins
Protons
Asymmetric Cell Division
RNA-Binding Motifs
Arginine
Hydrogen
Central Nervous System

Keywords

  • Dynamics
  • Musashi
  • NMR
  • RNA-binding protein
  • RNA-protein interaction

ASJC Scopus subject areas

  • Virology

Cite this

Structure, backbone dynamics and interactions with RNA of the C-terminal RNA-binding domain of a mouse neural RNA-binding protein, Musashi1. / Nagata, Takashi; Kanno, Reisuke; Kurihara, Yasuyuki; Uesugi, Seiichi; Imai, Takao; Sakakibara, Shinichi; Okano, Hideyuki; Katahira, Masato.

In: Journal of Molecular Biology, Vol. 287, No. 2, 26.03.1999, p. 315-330.

Research output: Contribution to journalArticle

Nagata, Takashi ; Kanno, Reisuke ; Kurihara, Yasuyuki ; Uesugi, Seiichi ; Imai, Takao ; Sakakibara, Shinichi ; Okano, Hideyuki ; Katahira, Masato. / Structure, backbone dynamics and interactions with RNA of the C-terminal RNA-binding domain of a mouse neural RNA-binding protein, Musashi1. In: Journal of Molecular Biology. 1999 ; Vol. 287, No. 2. pp. 315-330.
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