NMR structural study of TcUBP1, a single RRM domain protein from Trypanosoma cruzi: Contribution of a β hairpin to RNA binding

Laurent Volpon, Iván D'Orso, Christopher R. Young, Alberto C. Frasch, Kalle Gehring

Research output: Contribution to journalArticle

28 Citations (Scopus)

Abstract

TcUBP1 is a trypanosome cytoplasmic RNA-binding protein containing a single, conserved RNA-recognition motif (RRM) domain involved in selective destabilization of U-rich mRNAs such as the Trypanosoma cruzi small mucin gene family mRNA, TcSMUG. TcUBP1 binds specific transcripts in vivo and co-localizes in the perinuclear part of the cell with components of the mRNA-stability determinant pathway such as poly(A)-binding protein 1 (PABP1) and TcUBP2, a closely related RRM-containing protein. In TcUBP proteins, the RRM domain is flanked by N-terminal Gln-rich and C-terminal Gly-Gln-rich extensions, which are involved in protein-protein interactions. In this work, we determined the solution structure of the TcUBP1 RRM domain by nuclear magnetic resonance (NMR) spectroscopy. The domain has a characteristic βαββα β fold, consisting of a β sheet composed of four antiparallel β strands and two α helices packed against one face of the β sheet. A unique aspect of TcUBP1 is the participation of a β hairpin (β4-β5) in the β sheet, resulting in an enlarged RNA-binding surface. Detailed analysis of the TcUBP1 interaction with a short single-stranded RNA derived from the 3′ UTR of TcSMUG was carried out by titration experiments using both NMR spectroscopy and isothermal titration calorimetry. This analysis revealed that amino acids located within the β hairpin (β4-β5) contribute to complex formation. This enlarged protein-RNA interface could compensate for the lack of additional RNA-binding domains in TcUBP1, as observed in many other RRM-containing proteins. The structure of TcUBP1 reveals new aspects of single RRM-RNA interactions and insight into how N- and C-terminal extensions can contribute to RNA binding.

Original languageEnglish (US)
Pages (from-to)3708-3717
Number of pages10
JournalBiochemistry
Volume44
Issue number10
DOIs
StatePublished - Mar 15 2005

Fingerprint

Trypanosoma cruzi
Magnetic Resonance Spectroscopy
Nuclear magnetic resonance
RNA
Proteins
glycylglutamine
Poly(A)-Binding Proteins
Messenger RNA
Calorimetry
RNA-Binding Proteins
Trypanosomiasis
RNA Stability
3' Untranslated Regions
Mucins
Cellular Structures
Titration
Nuclear magnetic resonance spectroscopy
RNA Recognition Motif Proteins
Amino Acids
Genes

ASJC Scopus subject areas

  • Biochemistry

Cite this

NMR structural study of TcUBP1, a single RRM domain protein from Trypanosoma cruzi : Contribution of a β hairpin to RNA binding. / Volpon, Laurent; D'Orso, Iván; Young, Christopher R.; Frasch, Alberto C.; Gehring, Kalle.

In: Biochemistry, Vol. 44, No. 10, 15.03.2005, p. 3708-3717.

Research output: Contribution to journalArticle

Volpon, Laurent ; D'Orso, Iván ; Young, Christopher R. ; Frasch, Alberto C. ; Gehring, Kalle. / NMR structural study of TcUBP1, a single RRM domain protein from Trypanosoma cruzi : Contribution of a β hairpin to RNA binding. In: Biochemistry. 2005 ; Vol. 44, No. 10. pp. 3708-3717.
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