SURVEY AND SUMMARY: Comparative analysis of editosome proteins in trypanosomatids

Elizabeth Worthey

Achim Schnaufer

I Mian

Kenneth Stuart

Reza Salavati

^{Seattle Biomedical Research Institute, Seattle, WA 98109, USA,}^{Department of Pathobiology, University of Washington, Seattle, WA 98195, USA and}^{Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA}

^{To whom correspondence should be addressed at Seattle Biomedical Research Institute, 4 Nickerson Street, Seattle, WA 98109, USA. Tel: +1 206 284 8846; Fax: +1 206 284 0313; Email:}ude.notgnihsaw.u@itavlasr

Received 2003 Jul 2; Revised 2003 Sep 30; Accepted 2003 Sep 30.

Abstract

Detailed comparisons of 16 editosome proteins from Trypanosoma brucei, Trypanosoma cruzi and Leishmania major identified protein motifs associated with catalysis and protein or nucleic acid interactions that suggest their functions in RNA editing. Five related proteins with RNase III-like motifs also contain a U1-like zinc finger and either dsRBM or Pumilio motifs. These proteins may provide the endoribonuclease function in editing. Two other related proteins, at least one of which is associated with U-specific 3′ exonuclease activity, contain two putative nuclease motifs. Thus, editosomes contain a plethora of nucleases or proteins presumably derived from nucleases. Five additional related proteins, three of which have zinc fingers, each contain a motif associated with an OB fold; the TUTases have C-terminal folds reminiscent of RNA binding motifs, thus indicating the presence of numerous nucleic acid and/or protein binding domains, as do the two RNA ligases and a RNA helicase, which provide for additional catalytic steps in editing. These data indicate that trypanosomatid RNA editing is orchestrated by a variety of domains for catalysis, molecular interaction and structure. These domains are generally conserved within other protein families, but some are found in novel combinations in the editosome proteins.

Abstract

^{Pre-processed mitochondrial protein followed by size in kilodalton.}

^{Number of amino acids used in the alignment in}T.cruzi or L.major, respectively.

^{Percent identity.}

^{Percent similarity.}

ACKNOWLEDGEMENTS

This work was supported by NIH grants 1R21AI053784-01 to R.S. and AI14102 to K.S.

ACKNOWLEDGEMENTS

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