메뉴 건너뛰기




Volumn 42, Issue 8, 2014, Pages 5347-5360

Quaternary arrangement of an active, native group II intron ribonucleoprotein complex revealed by small-angle X-ray scattering

Author keywords

[No Author keywords available]

Indexed keywords

DIMER; RIBONUCLEOPROTEIN; SUCROSE; TRANSFER RNA;

EID: 84899873003     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gku140     Document Type: Article
Times cited : (15)

References (57)
  • 1
    • 0000680282 scopus 로고    scopus 로고
    • Craig, N., Craigie, R., Gellert, M. and Lambowitz, A. (eds) ASM Press, Washington D.C.
    • Belfort, M., Derbyshire, V., Cousineau, B. and Lambowitz, A. (2002) In: Craig, N., Craigie, R., Gellert, M. and Lambowitz, A. (eds), Mobile DNA II. ASM Press, Washington D.C., pp. 761-783.
    • (2002) Mobile DNA II , pp. 761-783
    • Belfort, M.1    Derbyshire, V.2    Cousineau, B.3    Lambowitz, A.4
  • 3
    • 0038049910 scopus 로고    scopus 로고
    • Group II introns: Structure and catalytic versatility of large natural ribozymes
    • Lehmann, K. and Schmidt, U. (2003) Group II introns: structure and catalytic versatility of large natural ribozymes. Crit. Rev. Biochem. Mol., 38, 249-303.
    • (2003) Crit. Rev. Biochem. Mol. , vol.38 , pp. 249-303
    • Lehmann, K.1    Schmidt, U.2
  • 4
    • 77950940981 scopus 로고    scopus 로고
    • Nuclear expression of a group II intron is consistent with spliceosomal intron ancestry
    • Chalamcharla, V.R., Curcio, M.J. and Belfort, M. (2010) Nuclear expression of a group II intron is consistent with spliceosomal intron ancestry. Genes Dev., 24, 827-836.
    • (2010) Genes Dev. , vol.24 , pp. 827-836
    • Chalamcharla, V.R.1    Curcio, M.J.2    Belfort, M.3
  • 5
    • 0022552726 scopus 로고
    • The generality of self-splicing RNA: Relationship to nuclear mRNA splicing
    • Cech, T.R. (1986) The generality of self-splicing RNA: relationship to nuclear mRNA splicing. Cell, 44, 207-210.
    • (1986) Cell , vol.44 , pp. 207-210
    • Cech, T.R.1
  • 6
    • 0025810123 scopus 로고
    • Intron phylogeny: A new hypothesis
    • Cavalier-Smith, T. (1991) Intron phylogeny: a new hypothesis. Trends Genet., 7, 145-148.
    • (1991) Trends Genet. , vol.7 , pp. 145-148
    • Cavalier-Smith, T.1
  • 7
    • 0026261876 scopus 로고
    • Five easy pieces
    • Sharp, P.A. (1991) Five easy pieces. Science, 254, 663.
    • (1991) Science , vol.254 , pp. 663
    • Sharp, P.A.1
  • 8
    • 0036285645 scopus 로고    scopus 로고
    • A catalytically active group II intron domain 5 can function in the U12-dependent spliceosome
    • Shukla, G.C. and Padgett, R.A. (2002) A catalytically active group II intron domain 5 can function in the U12-dependent spliceosome. Mol. Cell, 9, 1145-1150.
    • (2002) Mol. Cell , vol.9 , pp. 1145-1150
    • Shukla, G.C.1    Padgett, R.A.2
  • 10
    • 57049092878 scopus 로고    scopus 로고
    • The take and give between retrotransposable elements and their hosts
    • Beauregard, A., Curcio, M.J. and Belfort, M. (2008) The take and give between retrotransposable elements and their hosts. Annu. Rev. Genet., 42, 587-617.
    • (2008) Annu. Rev. Genet. , vol.42 , pp. 587-617
    • Beauregard, A.1    Curcio, M.J.2    Belfort, M.3
  • 11
    • 0025001288 scopus 로고
    • Involvement of aminoacyl-tRNA synthetases and other proteins in group i and group II intron splicing
    • Lambowitz, A.M. and Perlman, P.S. (1990) Involvement of aminoacyl-tRNA synthetases and other proteins in group I and group II intron splicing. Trends Biochem. Sci., 15, 440-444.
    • (1990) Trends Biochem. Sci. , vol.15 , pp. 440-444
    • Lambowitz, A.M.1    Perlman, P.S.2
  • 12
    • 0027305131 scopus 로고
    • Introns as mobile genetic elements
    • Lambowitz, A.M. and Belfort, M. (1993) Introns as mobile genetic elements. Annu. Rev. Biochem., 62, 587-622.
    • (1993) Annu. Rev. Biochem. , vol.62 , pp. 587-622
    • Lambowitz, A.M.1    Belfort, M.2
  • 13
    • 2542540696 scopus 로고    scopus 로고
    • Assembly of an active group II intron-maturase complex by protein dimerization
    • Rambo, R.P. and Doudna, J.A. (2004) Assembly of an active group II intron-maturase complex by protein dimerization. Biochemistry, 43, 6486-6497.
    • (2004) Biochemistry , vol.43 , pp. 6486-6497
    • Rambo, R.P.1    Doudna, J.A.2
  • 15
    • 0029162089 scopus 로고
    • Group II intron mobility occurs by target DNA-primed reverse transcription
    • Zimmerly, S., Guo, H., Perlman, P.S. and Lambowitz, A.M. (1995) Group II intron mobility occurs by target DNA-primed reverse transcription. Cell, 82, 545-554.
    • (1995) Cell , vol.82 , pp. 545-554
    • Zimmerly, S.1    Guo, H.2    Perlman, P.S.3    Lambowitz, A.M.4
  • 16
    • 11144250864 scopus 로고    scopus 로고
    • Domain structure and three-dimensional model of a group II intron-encoded reverse transcriptase
    • Blocker, F.J., Mohr, G., Conlan, L.H., Qi, L., Belfort, M. and Lambowitz, A.M. (2005) Domain structure and three-dimensional model of a group II intron-encoded reverse transcriptase. RNA, 11, 14-28.
    • (2005) RNA , vol.11 , pp. 14-28
    • Blocker, F.J.1    Mohr, G.2    Conlan, L.H.3    Qi, L.4    Belfort, M.5    Lambowitz, A.M.6
  • 17
    • 0033551494 scopus 로고    scopus 로고
    • RNA and protein catalysis in group II intron splicing and mobility reactions using purified components
    • Saldanha, R., Chen, B., Wank, H., Matsuura, M., Edwards, J. and Lambowitz, A.M. (1999) RNA and protein catalysis in group II intron splicing and mobility reactions using purified components. Biochemistry, 38, 9069-9083.
    • (1999) Biochemistry , vol.38 , pp. 9069-9083
    • Saldanha, R.1    Chen, B.2    Wank, H.3    Matsuura, M.4    Edwards, J.5    Lambowitz, A.M.6
  • 18
    • 0033180584 scopus 로고    scopus 로고
    • A reverse-transcriptase/maturase promotes splicing by binding at its own coding segment in a group II intron RNA
    • Wank, H., SanFilippo, J., Singh, R.N., Matsuura, M. and Lambowitz, A.M. (1999) A reverse-transcriptase/maturase promotes splicing by binding at its own coding segment in a group II intron RNA. Mol. Cell, 4, 239-250.
    • (1999) Mol. Cell , vol.4 , pp. 239-250
    • Wank, H.1    Sanfilippo, J.2    Singh, R.N.3    Matsuura, M.4    Lambowitz, A.M.5
  • 19
    • 0242637333 scopus 로고    scopus 로고
    • The DIVa maturase binding site in the yeast group II intron aI2 is essential for intron homing but not for in vivo splicing
    • Huang, H.R., Chao, M.Y., Armstrong, B., Wang, Y., Lambowitz, A.M. and Perlman, P.S. (2003) The DIVa maturase binding site in the yeast group II intron aI2 is essential for intron homing but not for in vivo splicing. Mol. Cell Biol., 23, 8809-8819.
    • (2003) Mol. Cell Biol. , vol.23 , pp. 8809-8819
    • Huang, H.R.1    Chao, M.Y.2    Armstrong, B.3    Wang, Y.4    Lambowitz, A.M.5    Perlman, P.S.6
  • 20
    • 43449125871 scopus 로고    scopus 로고
    • A three-dimensional model of a group II intron RNA and its interaction with the intron-encoded reverse transcriptase
    • Dai, L., Chai, D., Gu, S.Q., Gabel, J., Noskov, S.Y., Blocker, F.J., Lambowitz, A.M. and Zimmerly, S. (2008) A three-dimensional model of a group II intron RNA and its interaction with the intron-encoded reverse transcriptase. Mol. Cell, 30, 472-485.
    • (2008) Mol. Cell , vol.30 , pp. 472-485
    • Dai, L.1    Chai, D.2    Gu, S.Q.3    Gabel, J.4    Noskov, S.Y.5    Blocker, F.J.6    Lambowitz, A.M.7    Zimmerly, S.8
  • 21
    • 40649103446 scopus 로고    scopus 로고
    • Purification of functional RNA-protein complexes using MS2-MBP
    • Chapter 27, Unit 27.3
    • Zhou, Z. and Reed, R. (2003) Purification of functional RNA-protein complexes using MS2-MBP. Curr. Protoc. Mol. Biol., Chapter 27, Unit 27.3.
    • (2003) Curr. Protoc. Mol. Biol
    • Zhou, Z.1    Reed, R.2
  • 23
    • 41749109563 scopus 로고    scopus 로고
    • Crystal structure of a self-spliced group II intron
    • Toor, N., Keating, K.S., Taylor, S.D. and Pyle, A.M. (2008) Crystal structure of a self-spliced group II intron. Science, 320, 77-82.
    • (2008) Science , vol.320 , pp. 77-82
    • Toor, N.1    Keating, K.S.2    Taylor, S.D.3    Pyle, A.M.4
  • 26
    • 0033179750 scopus 로고    scopus 로고
    • Functional interactions of Prp8 with both splice sites at the spliceosomal catalytic center
    • Siatecka, M., Reyes, J.L. and Konarska, M.M. (1999) Functional interactions of Prp8 with both splice sites at the spliceosomal catalytic center. Genes Dev., 13, 1983-1993.
    • (1999) Genes Dev. , vol.13 , pp. 1983-1993
    • Siatecka, M.1    Reyes, J.L.2    Konarska, M.M.3
  • 27
    • 9844256088 scopus 로고    scopus 로고
    • A bacterial group II intron encoding reverse transcriptase, maturase, and DNA endonuclease activities: Biochemical demonstration of maturase activity and insertion of new genetic information within the intron
    • Matsuura, M., Saldanha, R., Ma, H., Wank, H., Yang, J., Mohr, G., Cavanagh, S., Dunny, G.M., Belfort, M. and Lambowitz, A.M. (1997) A bacterial group II intron encoding reverse transcriptase, maturase, and DNA endonuclease activities: biochemical demonstration of maturase activity and insertion of new genetic information within the intron. Genes Dev., 11, 2910-2924.
    • (1997) Genes Dev. , vol.11 , pp. 2910-2924
    • Matsuura, M.1    Saldanha, R.2    Ma, H.3    Wank, H.4    Yang, J.5    Mohr, G.6    Cavanagh, S.7    Dunny, G.M.8    Belfort, M.9    Lambowitz, A.M.10
  • 28
    • 77953782186 scopus 로고    scopus 로고
    • Structural properties of HIV integrase. Lens epithelium-derived growth factor oligomers
    • Gupta, K., Diamond, T., Hwang, Y., Bushman, F. and Van Duyne, G.D. (2010) Structural properties of HIV integrase. Lens epithelium-derived growth factor oligomers. J. Biol. Chem., 285, 20303-20315.
    • (2010) J. Biol. Chem. , vol.285 , pp. 20303-20315
    • Gupta, K.1    Diamond, T.2    Hwang, Y.3    Bushman, F.4    Van Duyne, G.D.5
  • 29
    • 0034009520 scopus 로고    scopus 로고
    • Size-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and lamm equation modeling
    • Schuck, P. (2000) Size-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and lamm equation modeling. Biophys. J., 78, 1606-1619.
    • (2000) Biophys. J. , vol.78 , pp. 1606-1619
    • Schuck, P.1
  • 33
    • 0037126592 scopus 로고    scopus 로고
    • Mechanism of maturase-promoted group II intron splicing
    • Matsuura, M., Noah, J.W. and Lambowitz, A.M. (2001) Mechanism of maturase-promoted group II intron splicing. EMBO J., 20, 7259-7270.
    • (2001) EMBO J. , vol.20 , pp. 7259-7270
    • Matsuura, M.1    Noah, J.W.2    Lambowitz, A.M.3
  • 34
    • 0014694079 scopus 로고
    • X-ray scattering study of ribosomes from Escherichia coli
    • Hill, W.E., Thompson, J.D. and Anderegg, J.W. (1969) X-ray scattering study of ribosomes from Escherichia coli. J. Mol. Biol., 44, 89-102.
    • (1969) J. Mol. Biol. , vol.44 , pp. 89-102
    • Hill, W.E.1    Thompson, J.D.2    Anderegg, J.W.3
  • 35
    • 0020510741 scopus 로고
    • X-ray solution-scattering studies of active and inactive Escherichia coli ribosomal subunits
    • Kearney, K.R. and Moore, P.B. (1983) X-ray solution-scattering studies of active and inactive Escherichia coli ribosomal subunits. J. Mol. Biol., 170, 381-402.
    • (1983) J. Mol. Biol. , vol.170 , pp. 381-402
    • Kearney, K.R.1    Moore, P.B.2
  • 36
    • 77149170364 scopus 로고    scopus 로고
    • Improving small-angle X-ray scattering data for structural analyses of the RNA world
    • Rambo, R.P. and Tainer, J.A. (2010) Improving small-angle X-ray scattering data for structural analyses of the RNA world. RNA, 16, 638-646.
    • (2010) RNA , vol.16 , pp. 638-646
    • Rambo, R.P.1    Tainer, J.A.2
  • 37
    • 0019336851 scopus 로고
    • X-ray small-angle scattering study of mononucleosomes and of the close packing of nucleosomes in polynucleosomes
    • Damaschun, H., Damaschun, G., Pospelov, V.A. and Vorob'ev, V.I. (1980) X-ray small-angle scattering study of mononucleosomes and of the close packing of nucleosomes in polynucleosomes. Mol. Biol. Rep., 6, 185-191.
    • (1980) Mol. Biol. Rep. , vol.6 , pp. 185-191
    • Damaschun, H.1    Damaschun, G.2    Pospelov, V.A.3    Vorob'Ev, V.I.4
  • 39
    • 33845328453 scopus 로고    scopus 로고
    • Size, shape, and flexibility of RNA structures
    • Hyeon, C., Dima, R.I. and Thirumalai, D. (2006) Size, shape, and flexibility of RNA structures. J. Chem. Phys., 125, 194905.
    • (2006) J. Chem. Phys. , vol.125 , pp. 194905
    • Hyeon, C.1    Dima, R.I.2    Thirumalai, D.3
  • 40
    • 0013404780 scopus 로고
    • Neutron small-angle scattering of biological macromolecules in solution
    • Stuhrman, H.B. (1974) Neutron small-angle scattering of biological macromolecules in solution. J. Appl. Cryst., 7, 173-178.
    • (1974) J. Appl. Cryst. , vol.7 , pp. 173-178
    • Stuhrman, H.B.1
  • 41
    • 0017619403 scopus 로고
    • Small angle neutron scattering studies of chromatin subunits in solution
    • Hjelm, R.P., Kneale, G.G., Sauau, P., Baldwin, J.P., Bradbury, E.M. and Ibel, K. (1977) Small angle neutron scattering studies of chromatin subunits in solution. Cell, 10, 139-151.
    • (1977) Cell , vol.10 , pp. 139-151
    • Hjelm, R.P.1    Kneale, G.G.2    Sauau, P.3    Baldwin, J.P.4    Bradbury, E.M.5    Ibel, K.6
  • 42
    • 0031552355 scopus 로고    scopus 로고
    • Multiple tertiary interactions involving domain II of group II self-splicing introns
    • Costa, M., Deme, E., Jacquier, A. and Michel, F. (1997) Multiple tertiary interactions involving domain II of group II self-splicing introns. J. Mol. Biol., 267, 520-536.
    • (1997) J. Mol. Biol. , vol.267 , pp. 520-536
    • Costa, M.1    Deme, E.2    Jacquier, A.3    Michel, F.4
  • 43
    • 77952831096 scopus 로고    scopus 로고
    • The tertiary structure of group II introns: Implications for biological function and evolution
    • Pyle, A.M. (2010) The tertiary structure of group II introns: implications for biological function and evolution. Crit. Rev. Biochem. Mol., 45, 215-232.
    • (2010) Crit. Rev. Biochem. Mol. , vol.45 , pp. 215-232
    • Pyle, A.M.1
  • 44
    • 0032748181 scopus 로고    scopus 로고
    • Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing (Erratum vol 76, pg 2879, 1999)
    • Svergun, D.I. (1999) Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing (Erratum vol 76, pg 2879, 1999). Biophys. J., 77, 2896.
    • (1999) Biophys. J. , vol.77 , pp. 2896
    • Svergun, D.I.1
  • 46
    • 0000521158 scopus 로고
    • Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals
    • Westhof, E., Dumas, P. and Moras, D. (1988) Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals. Acta Crystallogr. A, 44(Pt 2), 112-123.
    • (1988) Acta Crystallogr. A , vol.44 , Issue.PART 2 , pp. 112-123
    • Westhof, E.1    Dumas, P.2    Moras, D.3
  • 47
    • 0022409750 scopus 로고
    • Nucleosome core particle structure and structural changes in solution
    • Greulich, K.O., Ausio, J. and Eisenberg, H. (1985) Nucleosome core particle structure and structural changes in solution. J. Mol. Biol., 186, 167-173.
    • (1985) J. Mol. Biol. , vol.186 , pp. 167-173
    • Greulich, K.O.1    Ausio, J.2    Eisenberg, H.3
  • 48
    • 0026519196 scopus 로고
    • X-ray scattering study of the shape of the DNA region in nucleosome core particle with synchrotron radiation
    • Inoko, Y., Yamamoto, M., Fujiwara, S. and Ueki, T. (1992) X-ray scattering study of the shape of the DNA region in nucleosome core particle with synchrotron radiation. J. Biochem., 111, 310-316.
    • (1992) J. Biochem. , vol.111 , pp. 310-316
    • Inoko, Y.1    Yamamoto, M.2    Fujiwara, S.3    Ueki, T.4
  • 49
    • 4444233084 scopus 로고    scopus 로고
    • Three-dimensional structure of the native spliceosome by cryo-electron microscopy
    • Azubel, M., Wolf, S.G., Sperling, J. and Sperling, R. (2004) Three-dimensional structure of the native spliceosome by cryo-electron microscopy. Mol. Cell, 15, 833-839.
    • (2004) Mol. Cell , vol.15 , pp. 833-839
    • Azubel, M.1    Wolf, S.G.2    Sperling, J.3    Sperling, R.4
  • 51
    • 0030015953 scopus 로고    scopus 로고
    • An RNA conformational change between the two chemical steps of group II self-splicing
    • Chanfreau, G. and Jacquier, A. (1996) An RNA conformational change between the two chemical steps of group II self-splicing. EMBO J., 15, 3466-3476.
    • (1996) EMBO J. , vol.15 , pp. 3466-3476
    • Chanfreau, G.1    Jacquier, A.2
  • 52
    • 0035901549 scopus 로고    scopus 로고
    • Visualizing the solvent-inaccessible core of a group II intron ribozyme
    • Swisher, J., Duarte, C.M., Su, L.J. and Pyle, A.M. (2001) Visualizing the solvent-inaccessible core of a group II intron ribozyme. EMBO J., 20, 2051-2061.
    • (2001) EMBO J. , vol.20 , pp. 2051-2061
    • Swisher, J.1    Duarte, C.M.2    Su, L.J.3    Pyle, A.M.4
  • 53
    • 0029066770 scopus 로고
    • Structure and activities of group II introns
    • Michel, F. and Ferat, J.-L. (1995) Structure and activities of group II introns. Ann. Rev. Biochem., 64, 435-461.
    • (1995) Ann. Rev. Biochem. , vol.64 , pp. 435-461
    • Michel, F.1    Ferat, J.-L.2
  • 54
    • 0034161995 scopus 로고    scopus 로고
    • Rules for DNA target site recognition by a Lactococcal group II intron enable retargeting of the intron to specific DNA sequences
    • Mohr, G., Smith, D., Belfort, M. and Lambowitz, A.M. (2000) Rules for DNA target site recognition by a Lactococcal group II intron enable retargeting of the intron to specific DNA sequences. Genes Dev., 14, 559-573.
    • (2000) Genes Dev. , vol.14 , pp. 559-573
    • Mohr, G.1    Smith, D.2    Belfort, M.3    Lambowitz, A.M.4
  • 55
    • 11844297811 scopus 로고    scopus 로고
    • The splicing of yeast mitochondrial group i and group II introns requires a DEAD-box protein with RNA chaperone function
    • Huang, H.R., Rowe, C.E., Mohr, S., Jiang, Y., Lambowitz, A.M. and Perlman, P.S. (2005) The splicing of yeast mitochondrial group I and group II introns requires a DEAD-box protein with RNA chaperone function. Proc. Natl Acad. Sci. USA, 102, 163-168.
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 163-168
    • Huang, H.R.1    Rowe, C.E.2    Mohr, S.3    Jiang, Y.4    Lambowitz, A.M.5    Perlman, P.S.6
  • 56
    • 33845738802 scopus 로고    scopus 로고
    • Involvement of DEAD-box proteins in group i and group II intron splicing. Biochemical characterization of Mss116p, ATP hydrolysis-dependent and-independent mechanisms, and general RNA chaperone activity
    • Halls, C., Mohr, S., Del Campo, M., Yang, Q., Jankowsky, E. and Lambowitz, A.M. (2007) Involvement of DEAD-box proteins in group I and group II intron splicing. Biochemical characterization of Mss116p, ATP hydrolysis-dependent and-independent mechanisms, and general RNA chaperone activity. J. Mol. Biol., 365, 835-855.
    • (2007) J. Mol. Biol. , vol.365 , pp. 835-855
    • Halls, C.1    Mohr, S.2    Del Campo, M.3    Yang, Q.4    Jankowsky, E.5    Lambowitz, A.M.6
  • 57
    • 57049102910 scopus 로고    scopus 로고
    • A mutant screen reveals RNase e as a silencer of group II intron retromobility in Escherichia coli
    • Coros, C.J., Piazza, C.L., Chalamcharla, V.R. and Belfort, M. (2008) A mutant screen reveals RNase E as a silencer of group II intron retromobility in Escherichia coli. RNA, 14, 2634-2644.
    • (2008) RNA , vol.14 , pp. 2634-2644
    • Coros, C.J.1    Piazza, C.L.2    Chalamcharla, V.R.3    Belfort, M.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.