RNA binding properties of conserved protein subunits of human RNase P

Nucleic Acids Research

Volumn 39, Issue 13, 2011, Pages 5704-5714

  Reiner, Robert ^a   Alfiya Mor, Noa ^a   Berrebi Demma, Mishka ^a   Wesolowski, Donna ^b   Altman, Sidney ^b   Jarrous, Nayef ^a  

^a HEBREW UNIVERSITY OF JERUSALEM   (Israel)

^b YALE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

POP 5 PROTEIN; PROTEIN SUBUNIT; RIBONUCLEASE P; RPP 14 PROTEIN; RPP 20 PROTEIN; RPP 21 PROTEIN; RPP 25 PROTEIN; RPP 29 PROTEIN; RPP 38 PROTEIN; UNCLASSIFIED DRUG;

ANALYTIC METHOD; ARTICLE; BINDING AFFINITY; CONCENTRATION RESPONSE; ENZYME ACTIVITY; HUMAN; IN VITRO STUDY; MOLECULAR INTERACTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN ASSEMBLY; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN REFOLDING; PROTEIN RNA BINDING; RNA STRUCTURE;

AUTOANTIGENS; BASE SEQUENCE; BINDING SITES; HUMANS; MAGNESIUM; MOLECULAR SEQUENCE DATA; PROTEIN FOLDING; PROTEIN SUBUNITS; RECOMBINANT PROTEINS; RIBONUCLEASE P; RIBONUCLEASES; RIBONUCLEOPROTEINS; RNA;

ARCHAEA;

EID: 80052186902     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr126     Document Type: Article

References (49)

1. Altman, S. (2000) The road to RNase P. Nat. Struct. Biol., 7, 827-828.
2. Evans, D., Marquez, S.M. and Pace, N.R. (2006) RNase P: interface of the RNA and protein worlds. Trends Biochem. Sci., 31, 333-341. (Pubitemid 43903240)
3. Guerrier-Takada, C., Gardiner, K., Marsh, T., Pace, N. and Altman, S. (1983) The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme. Cell, 35, 849-857. (Pubitemid 14168384)
4. Pannucci, J.A., Haas, E.S., Hall, T.A., Harris, J.K. and Brown, J.W. (1999) RNase P RNAs from some Archaea are catalytically active. Proc. Natl Acad. Sci. USA, 96, 7803-7808. (Pubitemid 29328362)
5. Kikovska, E., Svä rd, S.G. and Kirsebom, L.A. (2007) Eukaryotic RNase P RNA mediates cleavage in the absence of protein. Proc. Natl Acad. Sci. USA, 104, 2062-2067. (Pubitemid 46391352)
6. Willkomm, D.K. and Hartmann, R.K. (2007) An important piece of the RNase P jigsaw solved. Trends Biochem. Sci., 32, 247-250. (Pubitemid 46874929)
7. Eder, P.S., Kekuda, R., Stolc, V. and Altman, S. (1997) Characterization of two scleroderma autoimmune antigens that copurify with human ribonuclease P. Proc. Natl Acad. Sci. USA, 94, 1101-1106.
8. Jarrous, N. and Altman, S. (2001) Human ribonuclease P. Methods Enzymol., 342, 93-100. (Pubitemid 32911936)
9. van Eenennaam, H., Lugtenberg, D., Vogelzangs, J.H.P., van Venrooij, W.J. and Pruijn, G.J.M. (2001) hPop5, a protein subunit of the human RNase MRP and RNase P endoribonucleases. J. Biol. Chem., 276, 31635-31641.
10. Guerrier-Takada, C., Eder, P.S., Gopalan, V. and Altman, S. (2002) Purification and characterization of Rpp25, an RNA-binding protein subunit of human ribonuclease P. RNA, 8, 290-295. (Pubitemid 34311179)
11. Jarrous, N. (2002) Human ribonuclease P: subunits, function, and intranuclear localization. RNA, 8, 1-7. (Pubitemid 34260163)
12. Xiao, S., Scott, F., Fierke, C.A. and Engelke, D.R. (2002) Eukaryotic ribonuclease P: a plurality of ribonucleoprotein enzymes. Annu. Rev. Biochem., 71, 165-189. (Pubitemid 34800218)
13. Hartmann, E. and Hartmann, R.K. (2003) The enigma of ribonuclease P evolution. Trends Genet., 19, 561-569. (Pubitemid 37204915)
14. Hall, T.A. and Brown, J.W. (2002) Archaeal RNase P has multiple protein subunits homologous to eukaryotic nuclear RNase P proteins. RNA, 8, 296-306. (Pubitemid 34311180)
15. Cho, I.M., Lai, L.B., Susanti, D., Mukhopadhyay, B. and Gopalan, V. (2010) Ribosomal protein L7Ae is a subunit of archaeal RNase P. Proc. Natl Acad. Sci. USA, 107, 14573-14578.
16. Marquez, S.M., Chen, J.L., Evans, D. and Pace, N.R. (2006) Structure and function of eukaryotic ribonuclease P RNA. Mol. Cell, 24, 445-456. (Pubitemid 44647904)
17. Kazantsev, A.V., Krivenko, A.A., Harrington, D.J., Holbrook, S.R., Adams, P.D. and Pace, N.R. (2005) Crystal structure of a bacterial ribonuclease P RNA. Proc. Natl Acad. Sci. USA, 102, 13392-13397. (Pubitemid 41420858)
18. Torres-Larios, A., Swinger, K.K., Krasilnikov, A.S., Pan, T. and Mondragon, A. (2005) Crystal structure of the RNA component of bacterial ribonuclease P. Nature, 437, 584-587. (Pubitemid 41613559)
19. Ziehler, W.A., Morris, J., Scott, F.H., Millikin, C. and Engelke, D.R. (2001) An essential protein-binding domain of nuclear RNase P RNA. RNA, 7, 565-575. (Pubitemid 32416814)
20. Perederina, A., Esakova, O., Koc, H., Schmitt, M.E. and Krasilnikov, A.S. (2007) Specific binding of a Pop6/Pop7 heterodimer to the P3 stem of the yeast RNase MRP and RNase P RNAs. RNA, 13, 1648-1655. (Pubitemid 47481673)
21. Perederina, A., Esakova, O., Quan, C., Khanova, E. and Krasilnikov, A.S. (2010) Eukaryotic ribonucleases P/MRP: the crystal structure of the P3 domain. EMBO J., 29, 761-769.
22. Mann, H., Ben-Asouli, Y., Schein, A., Moussa, S. and Jarrous, N. (2003) Eukaryotic RNase P: role of RNA and protein subunits of a primordial catalytic ribonucleoprotein in RNA-based catalysis. Mol. Cell, 12, 925-935. (Pubitemid 37352785)
23. Kouzuma, Y., Mizoguchi, M., Takagi, H., Fukuhara, H., Tsukamoto, M., Numata, T. and Kimura, M. (2003) Reconstitution of archaeal ribonuclease P from RNA and four protein components. Biochem. Biophys. Res. Commun., 306, 666-673. (Pubitemid 37323814)
24. Boomershine, W.P., McElroy, C.A., Tsai, H.Y., Wilson, R.C., Gopalan, V. and Foster, M.P. (2003) Structure of Mth11/Mth Rpp29, an essential protein subunit of archaeal and eukaryotic RNase P. Proc. Natl Acad. Sci. USA, 100, 15398-15403. (Pubitemid 38021001)
25. Tsai, H.Y., Pulukkunat, D.K., Woznick, W.K. and Gopalan, V. (2006) Functional reconstitution and characterization of Pyrococcus furiosus RNase P. Proc. Natl Acad. Sci. USA, 103, 16147-16152. (Pubitemid 44715166)
26. Fukuhara, H., Kifusa, M., Watanabe, M., Terada, A., Honda, T., Numata, T., Kakuta, Y. and Kimura, M. (2006) A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3. Biochem. Biophys. Res. Commun., 343, 956-964. (Pubitemid 46137868)
27. Terada, A., Honda, T., Fukuhara, H., Hada, K. and Kimura, M. (2006) Characterization of the archaeal ribonuclease P proteins from Pyrococcus horikoshii OT3. J. Biochem., 140, 293-298. (Pubitemid 44618916)
28. Pulukkunat, D.K. and Gopalan, V. (2008) Studies on Methanocaldococcus jannaschii RNase P reveal insights into the roles of RNA and protein cofactors in RNase P catalysis. Nucleic Acids Res., 36, 4172-4180. (Pubitemid 351984832)
29. Honda, T., Kakuta, Y., Kimura, K., Saho, J. and Kimura, M. (2008) Structure of an archaeal homolog of the human protein complex Rpp21-Rpp29 that is a key core component for the assembly of active ribonuclease P. J. Mol. Biol., 384, 652-662.
30. Xu, Y., Amero, C.D., Pulukkunat, D.K., Gopalan, V. and Foster, M.P. (2009) Solution structure of an archaeal RNase P binary protein complex: formation of the 30-kDa complex between Pyrococcus furiosus RPP21 and RPP29 is accompanied by coupled protein folding and highlights critical features for protein-protein and protein-RNA interactions. J. Mol. Biol., 393, 1043-1055.
31. Jiang, T., Guerrier-Takada, C. and Altman, S. (2001) Protein-RNA interactions in the subunits of human nuclear RNase P. RNA, 7, 937-941. (Pubitemid 32612471)
32. Welting, T.J., van Venrooij, W.J. and Pruijn, G.J. (2004) Mutual interactions between subunits of the human RNase MRP ribonucleoprotein complex. Nucleic Acids Res., 32, 2138-2146. (Pubitemid 38854769)
33. Welting, T.J., Peters, F.M., Hensen, S.M., van Doorn, N.L., Kikkert, B.J., Raats, J.M., van Venrooij, W.J. and Pruijn, G.J. (2007) Heterodimerization regulates RNase MRP/RNase P association, localization, and expression of Rpp20 and Rpp25. RNA, 13, 65-75. (Pubitemid 46026181)
34. Hands-Taylor, K.L., Martino, L., Tata, R., Babon, J.J., Bui, T.T., Drake, A.F., Beavil, R.L., Pruijn, G.J., Brown, P.R. and Conte, M.R. (2010) Heterodimerization of the human RNase P/MRP subunits Rpp20 and Rpp25 is a prerequisite for interaction with the P3 arm of RNase MRP RNA. Nucleic Acids Res., 38, 4052-4066.
35. Houser-Scott, F., Xiao, S., Millikin, C.E., Zengel, J.M., Lindahl, L. and Engelke, D.R. (2002) Interactions among the protein and RNA subunits of Saccharomyces cerevisiae nuclear RNase P. Proc. Natl Acad. Sci. USA, 99, 2684-2689. (Pubitemid 34240521)
36. Aspinall, T.V., Gordon, J.M., Bennett, H.J., Karahalios, P., Bukowski, J.P., Walker, S.C., Engelke, D.R. and Avis, J.M. (2007) Interactions between subunits of Saccharomyces cerevisiae RNase MRP support a conserved eukaryotic RNase P/MRP architecture. Nucleic Acids Res., 35, 6439-6450. (Pubitemid 350111613)
37. Sharin, E., Schein, A., Mann, H., Ben-Asouli, Y. and Jarrous, N. (2005) RNase P: role of distinct protein cofactors in tRNA substrate recognition and RNA-based catalysis. Nucleic Acids Res., 33, 5120-5132. (Pubitemid 41487820)
38. Jiang, T. and Altman, S. (2002) A protein subunit of human RNase P, Rpp14, and its interacting partner, OIP2, have 30-〉50 exoribonuclease activity. Proc. Natl Acad. Sci. USA, 99, 5295-5300. (Pubitemid 34411542)
39. Welting, T.J., Mattijssen, S., Peters, F.M., van Doorn, N.L., Dekkers, L., van Venrooij, W.J., Heus, H.A., Bonafé, L. and Pruijn, G.J. (2008) Cartilage-hair hypoplasia-associated mutations in the RNase MRP P3 domain affect RNA folding and ribonucleoprotein assembly. Biochim. Biophys. Acta., 1783, 455-466.
40. Reiner, R., Krasnov-Yoeli, N., Dehtiar, Y. and Jarrous, N. (2008) Function and assembly of a chromatin-associated RNase P that is required for efficient transcription by RNA polymerase I. PLoS One, 3, e4072.
41. Marianayagam, N.J., Sunde, M. and Matthews, J.M. (2004) The power of two: protein dimerization in biology. Trends Biochem. Sci., 29, 618-625. (Pubitemid 39389082)
42. Stamatopoulou, V., Toumpeki, C., Tzakos, A., Vourekas, A. and Drainas, D. (2010) Domain architecture of the DRpp29 protein and its interaction with the RNA subunit of Dictyostelium discoideum RNase P. Biochemistry, 49, 10714-10727.
43. Buck, A.H., Kazantsev, A.V., Dalby, A.B. and Pace, N.R. (2005) Structural perspective on the activation of RNase P RNA by protein. Nat. Struct. Mol. Biol., 12, 958-964.
44. Reiter, N.J., Osterman, A., Torres-Larios, A., Swinger, K.K., Pan, T. and Mondragó n, A. (2010) Structure of a bacterial ribonuclease P holoenzyme in complex with tRNA. Nature, 468, 784-789.
45. Koutmou, K.S., Zahler, N.H., Kurz, J.C., Campbell, F.E., Harris, M.E. and Fierke, C.A. (2010) Protein-precursor tRNA contact leads to sequence-specific recognition of 50 leaders by bacterial ribonuclease P. J. Mol. Biol., 396, 195-208.
46. Honda, T., Hara, T., Nan, J., Zhang, X. and Kimura, M. (2010) Archaeal homologs of human RNase P protein pairs Pop5 with Rpp30 and Rpp21 with Rpp29 work on distinct functional domains of the RNA subunit. Biosci. Biotechnol. Biochem., 74, 266-273.
47. Sinapah, S., Wu, S., Chen, Y., Pettersson, B.M., Gopalan, V. and Kirsebom, L.A. (2010) Cleavage of model substrates by archaeal RNase P: role of protein cofactors in cleavage-site selection. Nucleic Acids Res., 39, 1105-1116.
48. Jarrous, N. and Gopalan, V. (2010) Archaeal/Eukaryal RNase P: subunits, functions and RNA diversification. Nucleic Acids Res., 38, 7885-7894.
49. Lai, L.B., Chan, P., Cozen, A., Bernick, D.L., Brown, J., Gopalan, V. and Lowe, T. (2010) Discovery of the elusive Pyrobaculum RNase P: an unexpected form of an ancient RNA. Proc. Natl Acad. Sci. USA, 107, 22493-22498.