Bibliography
Becker, T., Armache, J.-P., Jarasch, A., Anger, A. M., Villa, E., Sieber, H., Motaal, B. A., Mielke, T., Berninghausen, O., & Beckmann, R. (2011). Structure of the no-go mRNA decay complex Dom34âHbs1 bound to a stalled 80S ribosome. Nature Structural & Molecular Biology, 18(6), 715â720.
Authors
10
- Thomas Becker (first)
- Jean-Paul Armache (additional)
- Alexander Jarasch (additional)
- Andreas M Anger (additional)
- Elizabeth Villa (additional)
- Heidemarie Sieber (additional)
- Basma Abdel Motaal (additional)
- Thorsten Mielke (additional)
- Otto Berninghausen (additional)
- Roland Beckmann (additional)
References
49
Referenced
151
-
Conti, E. & Izaurralde, E. Nonsense-mediated mRNA decay: molecular insights and mechanistic variations across species. Curr. Opin. Cell Biol. 17, 316–325 (2005).
(
10.1016/j.ceb.2005.04.005
) / Curr. Opin. Cell Biol. by E Conti (2005) -
Frischmeyer, P.A. et al. An mRNA surveillance mechanism that eliminates transcripts lacking termination codons. Science 295, 2258–2261 (2002).
(
10.1126/science.1067338
) / Science by PA Frischmeyer (2002) -
van Hoof, A., Frischmeyer, P.A., Dietz, H.C. & Parker, R. Exosome-mediated recognition and degradation of mRNAs lacking a termination codon. Science 295, 2262–2264 (2002).
(
10.1126/science.1067272
) / Science by A van Hoof (2002) -
Doma, M.K. & Parker, R. Endonucleolytic cleavage of eukaryotic mRNAs with stalls in translation elongation. Nature 440, 561–564 (2006).
(
10.1038/nature04530
) / Nature by MK Doma (2006) -
Lee, H.H. et al. Structural and functional insights into Dom34, a key component of no-go mRNA decay. Mol. Cell 27, 938–950 (2007).
(
10.1016/j.molcel.2007.07.019
) / Mol. Cell by HH Lee (2007) -
Graille, M., Chaillet, M. & van Tilbeurgh, H. Structure of yeast Dom34: a protein related to translation termination factor eRF1 and involved in No-Go decay. J. Biol. Chem. 283, 7145–7154 (2008).
(
10.1074/jbc.M708224200
) / J. Biol. Chem. by M Graille (2008) -
Chavatte, L., Seit-Nebi, A., Dubovaya, V. & Favre, A. The invariant uridine of stop codons contacts the conserved NIKSR loop of human eRF1 in the ribosome. EMBO J. 21, 5302–5311 (2002).
(
10.1093/emboj/cdf484
) / EMBO J. by L Chavatte (2002) -
Frolova, L., Seit-Nebi, A. & Kisselev, L. Highly conserved NIKS tetrapeptide is functionally essential in eukaryotic translation termination factor eRF1. RNA 8, 129–136 (2002).
(
10.1017/S1355838202013262
) / RNA by L Frolova (2002) -
Passos, D.O. et al. Analysis of Dom34 and its function in no-go decay. Mol. Biol. Cell 20, 3025–3032 (2009).
(
10.1091/mbc.e09-01-0028
) / Mol. Biol. Cell by DO Passos (2009) -
Inagaki, Y. & Ford Doolittle, W. Evolution of the eukaryotic translation termination system: origins of release factors. Mol. Biol. Evol. 17, 882–889 (2000).
(
10.1093/oxfordjournals.molbev.a026368
) / Mol. Biol. Evol. by Y Inagaki (2000) -
Carr-Schmid, A., Pfund, C., Craig, E.A. & Kinzy, T.G. Novel G-protein complex whose requirement is linked to the translational status of the cell. Mol. Cell. Biol. 22, 2564–2574 (2002).
(
10.1128/MCB.22.8.2564-2574.2002
) / Mol. Cell. Biol. by A Carr-Schmid (2002) -
Shoemaker, C.J., Eyler, D.E. & Green, R. Dom34:Hbs1 promotes subunit dissociation and peptidyl-tRNA drop off to initiate no-go decay. Science 330, 369–372 (2010).
(
10.1126/science.1192430
) / Science by CJ Shoemaker (2010) -
Beckmann, R. et al. Architecture of the protein-conducting channel associated with the translating 80S ribosome. Cell 107, 361–372 (2001).
(
10.1016/S0092-8674(01)00541-4
) / Cell by R Beckmann (2001) -
Hosoda, N. et al. Translation termination factor eRF3 mediates mRNA decay through the regulation of deadenylation. J. Biol. Chem. 278, 38287–38291 (2003).
(
10.1074/jbc.C300300200
) / J. Biol. Chem. by N Hosoda (2003) -
Halic, M. et al. Structure of the signal recognition particle interacting with the elongation-arrested ribosome. Nature 427, 808–814 (2004).
(
10.1038/nature02342
) / Nature by M Halic (2004) -
Spahn, C.M. et al. Structure of the 80S ribosome from Saccharomyces cerevisiae-tRNA-ribosome and subunit-subunit interactions. Cell 107, 373–386 (2001).
(
10.1016/S0092-8674(01)00539-6
) / Cell by CM Spahn (2001) -
Ben-Shem, A., Jenner, L., Yusupova, G. & Yusupov, M. Crystal structure of the eukaryotic ribosome. Science 330, 1203–1209 (2010).
(
10.1126/science.1194294
) / Science by A Ben-Shem (2010) -
Armache, J.P. et al. Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-Å resolution. Proc. Natl. Acad. Sci. USA 107, 19748–19753 (2010).
(
10.1073/pnas.1009999107
) / Proc. Natl. Acad. Sci. USA by JP Armache (2010) -
Armache, J.P. et al. Localization of eukaryote-specific ribosomal proteins in a 5.5-A cryo-EM map of the 80S eukaryotic ribosome. Proc. Natl. Acad. Sci. USA 107, 19754–19759 (2010).
(
10.1073/pnas.1010005107
) / Proc. Natl. Acad. Sci. USA by JP Armache (2010) -
Chen, L. et al. Structure of the Dom34–Hbs1 complex and implications for no-go decay. Nat. Struct. Mol. Biol. 17, 1233–1240 (2010).
(
10.1038/nsmb.1922
) / Nat. Struct. Mol. Biol. by L Chen (2010) -
Kobayashi, K. et al. Structural basis for mRNA surveillance by archaeal Pelota and GTP-bound EF1α complex. Proc. Natl. Acad. Sci. USA 107, 17575–17579 (2010).
(
10.1073/pnas.1009598107
) / Proc. Natl. Acad. Sci. USA by K Kobayashi (2010) -
Cheng, Z. et al. Structural insights into eRF3 and stop codon recognition by eRF1. Genes Dev. 23, 1106–1118 (2009).
(
10.1101/gad.1770109
) / Genes Dev. by Z Cheng (2009) -
Kong, C. et al. Crystal structure and functional analysis of the eukaryotic class II release factor eRF3 from S. pombe. Mol. Cell 14, 233–245 (2004).
(
10.1016/S1097-2765(04)00206-0
) / Mol. Cell by C Kong (2004) -
Song, H. et al. The crystal structure of human eukaryotic release factor eRF1–mechanism of stop codon recognition and peptidyl-tRNA hydrolysis. Cell 100, 311–321 (2000).
(
10.1016/S0092-8674(00)80667-4
) / Cell by H Song (2000) -
Rabl, J., Leibundgut, M., Ataide, S.F., Haag, A. & Ban, N. Crystal structure of the eukaryotic 40S ribosomal subunit in complex with initiation factor 1. Science 331, 730–736 (2011).
(
10.1126/science.1198308
) / Science by J Rabl (2011) -
Gomez-Lorenzo, M.G. et al. Three-dimensional cryo-electron microscopy localization of EF2 in the Saccharomyces cerevisiae 80S ribosome at 17.5 Å resolution. EMBO J. 19, 2710–2718 (2000).
(
10.1093/emboj/19.11.2710
) / EMBO J. by MG Gomez-Lorenzo (2000) -
Spahn, C.M. et al. Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation. EMBO J. 23, 1008–1019 (2004).
(
10.1038/sj.emboj.7600102
) / EMBO J. by CM Spahn (2004) -
Schuette, J.C. et al. GTPase activation of elongation factor EF-Tu by the ribosome during decoding. EMBO J. 28, 755–765 (2009).
(
10.1038/emboj.2009.26
) / EMBO J. by JC Schuette (2009) -
Villa, E. et al. Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis. Proc. Natl. Acad. Sci. USA 106, 1063–1068 (2009).
(
10.1073/pnas.0811370106
) / Proc. Natl. Acad. Sci. USA by E Villa (2009) -
Schmeing, T.M. et al. The crystal structure of the ribosome bound to EF-Tu and aminoacyl-tRNA. Science 326, 688–694 (2009).
(
10.1126/science.1179700
) / Science by TM Schmeing (2009) -
Andersen, G.R., Valente, L., Pedersen, L., Kinzy, T.G. & Nyborg, J. Crystal structures of nucleotide exchange intermediates in the eEF1A–eEF1Bα complex. Nat. Struct. Biol. 8, 531–534 (2001).
(
10.1038/88598
) / Nat. Struct. Biol. by GR Andersen (2001) - Frolova, L. et al. Eukaryotic polypeptide chain release factor eRF3 is an eRF1- and ribosome-dependent guanosine triphosphatase. RNA 2, 334–341 (1996). / RNA by L Frolova (1996)
-
Jenner, L.B., Demeshkina, N., Yusupova, G. & Yusupov, M. Structural aspects of messenger RNA reading frame maintenance by the ribosome. Nat. Struct. Mol. Biol. 17, 555–560 (2010).
(
10.1038/nsmb.1790
) / Nat. Struct. Mol. Biol. by LB Jenner (2010) -
Selmer, M. et al. Structure of the 70S ribosome complexed with mRNA and tRNA. Science 313, 1935–1942 (2006).
(
10.1126/science.1131127
) / Science by M Selmer (2006) -
Yusupova, G.Z., Yusupov, M.M., Cate, J.H. & Noller, H.F. The path of messenger RNA through the ribosome. Cell 106, 233–241 (2001).
(
10.1016/S0092-8674(01)00435-4
) / Cell by GZ Yusupova (2001) -
Jenner, L.B., Demeshkina, N., Yusupova, G. & Yusupov, M. Structural aspects of messenger RNA reading frame maintenance by the ribosome. Nat. Struct. Mol. Biol. 17, 555–560 (2010).
(
10.1038/nsmb.1790
) / Nat. Struct. Mol. Biol. by LB Jenner (2010) -
Becker, T. et al. Structure of monomeric yeast and mammalian Sec61 complexes interacting with the translating ribosome. Science 326, 1369–1373 (2009).
(
10.1126/science.1178535
) / Science by T Becker (2009) -
Rawat, U. et al. Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM. J. Mol. Biol. 357, 1144–1153 (2006).
(
10.1016/j.jmb.2006.01.038
) / J. Mol. Biol. by U Rawat (2006) -
Klaholz, B.P. et al. Structure of the Escherichia coli ribosomal termination complex with release factor 2. Nature 421, 90–94 (2003).
(
10.1038/nature01225
) / Nature by BP Klaholz (2003) -
Korostelev, A. et al. Crystal structure of a translation termination complex formed with release factor RF2. Proc. Natl. Acad. Sci. USA 105, 19684–19689 (2008).
(
10.1073/pnas.0810953105
) / Proc. Natl. Acad. Sci. USA by A Korostelev (2008) -
Weixlbaumer, A. et al. Insights into translational termination from the structure of RF2 bound to the ribosome. Science 322, 953–956 (2008).
(
10.1126/science.1164840
) / Science by A Weixlbaumer (2008) -
Church, G.M. & Gilbert, W. Genomic sequencing. Proc. Natl. Acad. Sci. USA 81, 1991–1995 (1984).
(
10.1073/pnas.81.7.1991
) / Proc. Natl. Acad. Sci. USA by GM Church (1984) -
Wagenknecht, T., Grassucci, R. & Frank, J. Electron microscopy and computer image averaging of ice-embedded large ribosomal subunits from Escherichia coli. J. Mol. Biol. 199, 137–147 (1988).
(
10.1016/0022-2836(88)90384-1
) / J. Mol. Biol. by T Wagenknecht (1988) -
Frank, J. et al. SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields. J. Struct. Biol. 116, 190–199 (1996).
(
10.1006/jsbi.1996.0030
) / J. Struct. Biol. by J Frank (1996) -
Mindell, J.A. & Grigorieff, N. Accurate determination of local defocus and specimen tilt in electron microscopy. J. Struct. Biol. 142, 334–347 (2003).
(
10.1016/S1047-8477(03)00069-8
) / J. Struct. Biol. by JA Mindell (2003) -
Chen, J.Z. & Grigorieff, N. SIGNATURE: a single-particle selection system for molecular electron microscopy. J. Struct. Biol. 157, 168–173 (2007).
(
10.1016/j.jsb.2006.06.001
) / J. Struct. Biol. by JZ Chen (2007) -
Söding, J., Biegert, A. & Lupas, A.N. The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res. 33, W244–W248 (2005).
(
10.1093/nar/gki408
) / Nucleic Acids Res. by J Söding (2005) -
Eswar, N., Eramian, D., Webb, B., Shen, M.Y. & Sali, A. Protein structure modeling with MODELLER. Methods Mol. Biol. 426, 145–159 (2008).
(
10.1007/978-1-60327-058-8_8
) / Methods Mol. Biol. by N Eswar (2008) -
Trabuco, L.G., Villa, E., Mitra, K., Frank, J. & Schulten, K. Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics. Structure 16, 673–683 (2008).
(
10.1016/j.str.2008.03.005
) / Structure by LG Trabuco (2008)
Dates
Type | When |
---|---|
Created | 14 years, 2 months ago (May 29, 2011, 1:46 p.m.) |
Deposited | 2 years, 3 months ago (May 19, 2023, 12:29 a.m.) |
Indexed | 2 weeks ago (Aug. 12, 2025, 5:53 p.m.) |
Issued | 14 years, 2 months ago (May 29, 2011) |
Published | 14 years, 2 months ago (May 29, 2011) |
Published Online | 14 years, 2 months ago (May 29, 2011) |
Published Print | 14 years, 2 months ago (June 1, 2011) |
@article{Becker_2011, title={Structure of the no-go mRNA decay complex Dom34–Hbs1 bound to a stalled 80S ribosome}, volume={18}, ISSN={1545-9985}, url={http://dx.doi.org/10.1038/nsmb.2057}, DOI={10.1038/nsmb.2057}, number={6}, journal={Nature Structural & Molecular Biology}, publisher={Springer Science and Business Media LLC}, author={Becker, Thomas and Armache, Jean-Paul and Jarasch, Alexander and Anger, Andreas M and Villa, Elizabeth and Sieber, Heidemarie and Motaal, Basma Abdel and Mielke, Thorsten and Berninghausen, Otto and Beckmann, Roland}, year={2011}, month=may, pages={715–720} }