Multimeric assembly and biochemical characterization of the Trax-translin endonuclease complex

Nature Structural and Molecular Biology

Volumn 18, Issue 6, 2011, Pages 658-664

  Tian, Yuan ^a,b   Simanshu, Dhirendra K ^a   Ascano, Manuel ^c,d   Diaz Avalos, Ruben ^e   Park, Ah Young ^f   Juranek, Stefan A ^c   Rice, William J ^e   Yin, Qian ^b   Robinson, Carol V ^f   Tuschl, Thomas ^c,d   Patel, Dinshaw J ^a  

^a MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

^b WEILL CORNELL MEDICAL COLLEGE   (United States)

^c ROCKEFELLER UNIVERSITY   (United States)

^d HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^e NEW YORK STRUCTURAL BIOLOGY CENTER   (United States)

^f UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

COMPONENT 3 PROMOTER OF RNA INDUCED SILENCING COMPLEX; MULTIPROTEIN COMPLEX; RIBONUCLEASE; UNCLASSIFIED DRUG;

ARTICLE; CATALYSIS; CRYSTAL STRUCTURE; DROSOPHILA MELANOGASTER; ELECTRON MICROSCOPY; ENZYME ACTIVITY; MASS SPECTROMETRY; MOLECULAR INTERACTION; PRIORITY JOURNAL; PROTEIN ASSEMBLY; STOICHIOMETRY;

ANIMALS; CARRIER PROTEINS; CATALYTIC DOMAIN; CRYSTALLOGRAPHY, X-RAY; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; ENDORIBONUCLEASES; KINETICS; MASS SPECTROMETRY; MICROSCOPY, ELECTRON; MODELS, MOLECULAR; PROTEIN MULTIMERIZATION; PROTEIN STRUCTURE, QUATERNARY; RNA;

EID: 79958819183     PISSN: 15459993     EISSN: 15459985     Source Type: Journal    
DOI: 10.1038/nsmb.2069     Document Type: Article

References (35)

1. Carthew, R.W. & Sontheimer, E.J. Origins and mechanisms of miRNAs and siRNAs. Cell 136, 642-655 (2009).
2. Kim, V.N., Han, J. & Siomi, M.C. Biogenesis of small RNAs in animals. Nat. Rev. Mol. Cell Biol. 10, 126-139 (2009).
3. Liu, Q. et al. R2D2, a bridge between the initiation and effector steps of the Drosophila RNAi pathway. Science 301, 1921-1925 (2003). (Pubitemid 37221400)
4. Tomari, Y., Matranga, C., Haley, B., Martinez, N. & Zamore, P.D. A protein sensor for siRNA asymmetry. Science 306, 1377-1380 (2004). (Pubitemid 39532515)
5. Wang, Y., Sheng, G., Juranek, S., Tuschl, T. & Patel, D.J. Structure of the guide-strand-containing argonaute silencing complex. Nature 456, 209-213 (2008).
6. Kawamata, T. & Tomari, Y. Making RISC. Trends Biochem. Sci. 35, 368-376 (2010).
7. Wang, Y. et al. Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes. Nature 461, 754-761 (2009).
8. Liu, Y. et al. C3PO, an endoribonuclease that promotes RNAi by facilitating RISC activation. Science 325, 750-753 (2009).
9. Jaendling, A. & McFarlane, R.J. Biological roles of translin and translin-associated factor-X: RNA metabolism comes to the fore. Biochem. J. 429, 225-234 (2010).
10. Li, Z., Wu, Y. & Baraban, J.M. The Translin/Trax RNA binding complex: clues to function in the nervous system. Biochim. Biophys. Acta 1779, 479-485 (2008).
11. Eliahoo, E. et al. Mapping of interaction sites of the Schizosaccharomyces pombe protein Translin with nucleic acids and proteins: a combined molecular genetics and bioinformatics study. Nucleic Acids Res. 38, 2975-2989 (2010).
12. Lluis, M., Hoe, W., Schleit, J. & Robertus, J. Analysis of nucleic acid binding by a recombinant translin-trax complex. Biochem. Biophys. Res. Commun. 396, 709-713 (2010).
13. Gupta, G.D., Makde, R.D., Rao, B.J. & Kumar, V. Crystal structures of Drosophila mutant translin and characterization of translin variants reveal the structural plasticity of translin proteins. FEBS J. 275, 4235-4249 (2008).
14. Pascal, J.M., Hart, P.J., Hecht, N.B. & Robertus, J.D. Crystal structure of TB-RBP, a novel RNA-binding and regulating protein. J. Mol. Biol. 319, 1049-1057 (2002). (Pubitemid 34729417)
15. Sugiura, I. et al. Structure of human translin at 2.2 A resolution. Acta Crystallogr. D Biol. Crystallogr. 60, 674-679 (2004). (Pubitemid 41184817)
16. VanLoock, M.S., Yu, X., Kasai, M. & Egelman, E.H. Electron microscopic studies of the translin octameric ring. J. Struct. Biol. 135, 58-66 (2001).
17. Claussen, M., Koch, R., Jin, Z.Y. & Suter, B. Functional characterization of Drosophila Translin and Trax. Genetics 174, 1337-1347 (2006). (Pubitemid 44808304)
18. Yang, W. An equivalent metal ion in one- and two-metal-ion catalysis. Nat. Struct. Mol. Biol. 15, 1228-1231 (2008).
19. Aharoni, A., Baran, N. & Manor, H. Characterization of a multisubunit human protein which selectively binds single stranded d(GA)n and d(GT)n sequence repeats in DNA. Nucleic Acids Res. 21, 5221-5228 (1993). (Pubitemid 23342536)
20. Aoki, K., Suzuki, K., Ishida, R. & Kasai, M. The DNA binding activity of Translin is mediated by a basic region in the ring-shaped structure conserved in evolution. FEBS Lett. 443, 363-366 (1999). (Pubitemid 29080827)
21. Aoki, K. et al. A novel gene, Translin, encodes a recombination hotspot binding protein associated with chromosomal translocations. Nat. Genet. 10, 167-174 (1995).
22. Gupta, G.D. et al. Co-expressed recombinant human Translin-Trax complex binds DNA. FEBS Lett. 579, 3141-3146 (2005). (Pubitemid 40797849)
23. Kasai, M. et al. The translin ring specifically recognizes DNA ends at recombination hot spots in the human genome. J. Biol. Chem. 272, 11402-11407 (1997). (Pubitemid 27184145)
24. Laufman, O., Ben Yosef, R., Adir, N. & Manor, H. Cloning and characterization of the Schizosaccharomyces pombe homologs of the human protein Translin and the Translin-associated protein TRAX. Nucleic Acids Res. 33, 4128-4139 (2005). (Pubitemid 41487273)
25. Sengupta, K. & Rao, B.J. Translin binding to DNA: recruitment through DNA ends and consequent conformational transitions. Biochemistry 41, 15315-15326 (2002). (Pubitemid 36008141)
26. Wang, J., Boja, E.S., Oubrahim, H. & Chock, P.B. Testis brain ribonucleic acid-binding protein/translin possesses both single-stranded and double-stranded ribonuclease activities. Biochemistry 43, 13424-13431 (2004). (Pubitemid 39391143)
27. Wu, X.Q., Gu, W., Meng, X. & Hecht, N.B. The RNA-binding protein, TB-RBP, is the mouse homologue of translin, a recombination protein associated with chromosomal translocations. Proc. Natl. Acad. Sci. USA 94, 5640-5645 (1997). (Pubitemid 27241822)
28. Wu, X.Q., Xu, L. & Hecht, N.B. Dimerization of the testis brain RNA-binding protein (translin) is mediated through its C-terminus and is required for DNA- and RNA-binding. Nucleic Acids Res. 26, 1675-1680 (1998). (Pubitemid 28291802)
29. Otwinowski, Z. & Minor, W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276, 307-326 (1997). (Pubitemid 27085611)
30. Bricogne, G., Vonrhein, C., Flensburg, C., Schiltz, M. & Paciorek, W. Generation, representation and flow of phase information in structure determination: recent developments in and around SHARP 2.0. Acta Crystallogr. D Biol. Crystallogr. 59, 2023-2030 (2003). (Pubitemid 37399336)
31. Strong, M. et al. Toward the structural genomics of complexes: crystal structure of a PE/PPE protein complex from Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. USA 103, 8060-8065 (2006). (Pubitemid 43801052)
32. Sobott, F., Hernandez, H., McCammon, M.G., Tito, M.A. & Robinson, C.V. A tandem mass spectrometer for improved transmission and analysis of large macromolecular assemblies. Anal. Chem. 74, 1402-1407 (2002). (Pubitemid 34233333)
33. Pettersen, E.F. et al. UCSF Chimera - a visualization system for exploratory research and analysis. J. Comput. Chem. 25, 1605-1612 (2004).
34. Alefelder, S., Patel, B.K. & Eckstein, F. Incorporation of terminal phosphorothioates into oligonucleotides. Nucleic Acids Res. 26, 4983-4988 (1998). (Pubitemid 28491180)
35. Akbergenov, R. et al. Molecular characterization of geminivirus-derived small RNAs in different plant species. Nucleic Acids Res. 34, 462-471 (2006). (Pubitemid 43240236)