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A more recent version of this article appeared on November 9, 2007
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M702375200v1
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Papers In Press, published online ahead of print September 4, 2007
J. Biol. Chem, 10.1074/jbc.M702375200
Submitted on March 20, 2007
Revised on August 21, 2007
Accepted on September 4, 2007

A multifunctional RNA recognition motif (RRM) in poly(A)-specific ribonuclease (PARN) with cap and poly(A) binding properties

Per Nilsson, Niklas Henriksson, Anna Niedzwiecka, Nikolaos A. A. Balatsos, Kyriakos Kokkoris, Jens Eriksson, and Anders Virtanen

Dept. of Cell and Molecular Biology, Uppsala University, Uppsala SE-75124

Corresponding Author: anders.virtanen{at}icm.uu.se

Poly(A)-specific ribonuclease (PARN) is an oligomeric, processive and cap-interacting 3’ exoribonuclease that efficiently degrades mRNA poly(A) tails. Here we show that the RNA recognition motif (RRM) of PARN harbors both poly(A) and cap binding properties suggesting that the RRM plays an important role for the two critical and unique properties that are tightly associated with PARN activity, i.e. recognition and dependence on both the cap structure and poly(A) tail during poly(A) hydrolysis. We show that PARN and its RRM have micromolar affinity to the cap structure by using fluorescence spectroscopy and nanomolar affinity for poly(A) by using filter binding assay. We have identified one tryptophan residue within the RRM that is essential for cap binding but not required for poly(A) binding suggesting that the cap and poly(A) binding sites associated with the RRM are both structurally and functionally separate from each other. RRM is one of the most commonly occurring RNA binding domains identified so far suggesting that other RRMs may have both cap and RNA binding properties just as the RRM of PARN.


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Nucleic Acids ResHome page
T. Nagata, S. Suzuki, R. Endo, M. Shirouzu, T. Terada, M. Inoue, T. Kigawa, N. Kobayashi, P. Guntert, A. Tanaka, et al.
The RRM domain of poly(A)-specific ribonuclease has a noncanonical binding site for mRNA cap analog recognition
Nucleic Acids Res., August 1, 2008; 36(14): 4754 - 4767.
[Abstract] [Full Text] [PDF]




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