-
1
-
-
0030702085
-
The exosome: A conserved eukaryotic RNA processing complex containing multiple 3'-45' exoribonucleases
-
Mitchell, P., Petfalski, E., Shevchenko, A., Mann, M., Tollervey, D. The exosome: a conserved eukaryotic RNA processing complex containing multiple 3'-45' exoribonucleases. Cell 91, 457-466 (1997).
-
(1997)
Cell
, vol.91
, pp. 457-466
-
-
Mitchell, P.1
Petfalski, E.2
Shevchenko, A.3
Mann, M.4
Tollervey, D.5
-
2
-
-
33745869788
-
RNA-quality control by the exosome
-
Houseley, J., LaCava, J., Tollervey, D. RNA-quality control by the exosome. Nat. Rev. Mol. Cell Biol. 7, 529-539 (2006).
-
(2006)
Nat. Rev. Mol. Cell Biol
, vol.7
, pp. 529-539
-
-
Houseley, J.1
LaCava, J.2
Tollervey, D.3
-
3
-
-
57749189164
-
Endonucleolytic RNA cleavage by a eukaryotic exosome
-
Lebreton, A., Tomecki, R., Dziembowski, A., Se?aphin, B. Endonucleolytic RNA cleavage by a eukaryotic exosome. Nature 456, 993-996 (2008).
-
(2008)
Nature
, vol.456
, pp. 993-996
-
-
Lebreton, A.1
Tomecki, R.2
Dziembowski, A.3
Seaphin, B.4
-
4
-
-
67649910424
-
Origins and activities of the eukaryotic exosome
-
Lykke-Andersen, S., Brodersen, D. E., Jensen, T. H. Origins and activities of the eukaryotic exosome. J. Cell Sci. 122, 1487-1494 (2009).
-
(2009)
J. Cell Sci
, vol.122
, pp. 1487-1494
-
-
Lykke-Andersen, S.1
Brodersen, D.E.2
Jensen, T.H.3
-
5
-
-
79960696302
-
Functions of the cytoplasmic exosome
-
Schaeffer, D., Clark, A., Klauer, A. A., Tsanova, B., van Hoof, A. Functions of the cytoplasmic exosome. Adv. Exp. Med. Biol. 702, 79-90 (2011).
-
(2011)
Adv. Exp. Med. Biol
, vol.702
, pp. 79-90
-
-
Schaeffer, D.1
Clark, A.2
Klauer, A.A.3
Tsanova, B.4
Van Hoof, A.5
-
6
-
-
84877837932
-
RNA decay machines: The exosome
-
Chlebowski, A., Lubas, M., Jensen, T. H., Dziembowski, A. RNA decay machines: the exosome. Biochim. Biophys. Acta 1829, 552-560 (2013).
-
(2013)
Biochim. Biophys. Acta
, vol.1829
, pp. 552-560
-
-
Chlebowski, A.1
Lubas, M.2
Jensen, T.H.3
Dziembowski, A.4
-
7
-
-
84886405949
-
The RNA exosome and proteasome: Common principles of degradation control
-
Makino, D. L., Halbach, F., Conti, E. The RNA exosome and proteasome: common principles of degradation control. Nature 14, 654-660 (2013).
-
(2013)
Nature
, vol.14
, pp. 654-660
-
-
Makino, D.L.1
Halbach, F.2
Conti, E.3
-
8
-
-
0035801392
-
Ski7p G protein interacts with the exosome and the Ski complex for 3'-to-5' mRNA decay in yeast
-
Araki, Y. et al. Ski7p G protein interacts with the exosome and the Ski complex for 3'-to-5' mRNA decay in yeast. EMBO J. 20, 4684-4693 (2001).
-
(2001)
EMBO J
, vol.20
, pp. 4684-4693
-
-
Araki, Y.1
-
9
-
-
84882796823
-
The yeast ski complex: Crystal structure and RNA channeling to the exosome complex
-
Halbach, F., Reichelt, P., Rode, M., Conti, E. The yeast ski complex: crystal structure and RNA channeling to the exosome complex. Cell 154, 814-826 (2013).
-
(2013)
Cell
, vol.154
, pp. 814-826
-
-
Halbach, F.1
Reichelt, P.2
Rode, M.3
Conti, E.4
-
10
-
-
0033777266
-
Function of the ski4p (Csl4p) and Ski7p proteins in 3'-to-5' degradation of mRNA
-
van Hoof, A., Staples, R. R., Baker, R. E., Parker, R. Function of the ski4p (Csl4p) and Ski7p proteins in 3'-to-5' degradation of mRNA. Mol. Cell. Biol. 20, 8230-8243 (2000).
-
(2000)
Mol. Cell. Biol
, vol.20
, pp. 8230-8243
-
-
Van Hoof, A.1
Staples, R.R.2
Baker, R.E.3
Parker, R.4
-
11
-
-
23644443992
-
Domain interactions within the Ski2/3/8 complex and between the Ski complex and Ski7p
-
Wang, L., Lewis, M. S., Johnson, A. W. Domain interactions within the Ski2/3/8 complex and between the Ski complex and Ski7p. RNA 11, 1291-1302 (2005).
-
(2005)
RNA
, vol.11
, pp. 1291-1302
-
-
Wang, L.1
Lewis, M.S.2
Johnson, A.W.3
-
12
-
-
84992358935
-
Structure of a cytoplasmic 11-subunit RNA exosome complex
-
Kowalinski, E. et al. Structure of a cytoplasmic 11-subunit RNA exosome complex. Mol. Cell 63, 125-134 (2016).
-
(2016)
Mol. Cell
, vol.63
, pp. 125-134
-
-
Kowalinski, E.1
-
13
-
-
84919337863
-
The exosome-binding factors Rrp6 and Rrp47 form a composite surface for recruiting the Mtr4 helicase
-
Schuch, B. et al. The exosome-binding factors Rrp6 and Rrp47 form a composite surface for recruiting the Mtr4 helicase. EMBO J. 33, 2829-2846 (2014).
-
(2014)
EMBO J
, vol.33
, pp. 2829-2846
-
-
Schuch, B.1
-
14
-
-
20444368818
-
RNA degradation by the exosome is promoted by a nuclear polyadenylation complex
-
LaCava, J. et al. RNA degradation by the exosome is promoted by a nuclear polyadenylation complex. Cell 121, 713-724 (2005).
-
(2005)
Cell
, vol.121
, pp. 713-724
-
-
LaCava, J.1
-
15
-
-
22744459614
-
A new yeast poly(A) polymerase complex involved in RNA quality control
-
Vanaova S. et al. A new yeast poly(A) polymerase complex involved in RNA quality control. Plos Biol. 3, e189 (2005).
-
(2005)
Plos Biol
, vol.3
, pp. e189
-
-
Vanaova, S.1
-
16
-
-
20444368036
-
Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase
-
Wyers, F. et al. Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase. Cell 121, 725-737 (2005).
-
(2005)
Cell
, vol.121
, pp. 725-737
-
-
Wyers, F.1
-
17
-
-
84908006760
-
The molecular architecture of the TRAMP complex reveals the organizationand interplay of its two catalytic activities
-
Falk, S. et al. The molecular architecture of the TRAMP complex reveals the organizationand interplay of its two catalytic activities. Mol. Cell 55, 856-867 (2014).
-
(2014)
Mol. Cell
, vol.55
, pp. 856-867
-
-
Falk, S.1
-
18
-
-
33344476794
-
Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4pdependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA
-
Kadaba, S. Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4pdependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA. RNA 12, 508-521 (2006).
-
(2006)
RNA
, vol.12
, pp. 508-521
-
-
Kadaba, S.1
-
19
-
-
2642574393
-
Nuclear surveillance and degradation of hypomodified initiator tRNAMet in S. Cerevisiae
-
Kadaba, S. Nuclear surveillance and degradation of hypomodified initiator tRNAMet in S. cerevisiae. Genes Dev. 18, 1227-1240 (2004).
-
(2004)
Genes Dev
, vol.18
, pp. 1227-1240
-
-
Kadaba, S.1
-
20
-
-
33644784770
-
Accumulation of unstable promoter-associated transcripts upon loss of the nuclear exosome subunit Rrp6p in Saccharomyces cerevisiae
-
Davis, C. A., Ares, M. Accumulation of unstable promoter-associated transcripts upon loss of the nuclear exosome subunit Rrp6p in Saccharomyces cerevisiae. Proc. Natl Acad. Sci. USA 103, 3262-3267 (2006).
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 3262-3267
-
-
Davis, C.A.1
Ares, M.2
-
21
-
-
34347332400
-
Depletion of the yeast nuclear exosome subunit Rrp6 results in accumulation of polyadenylated RNAs in a discrete domain within the nucleolus
-
Carneiro, T. et al. Depletion of the yeast nuclear exosome subunit Rrp6 results in accumulation of polyadenylated RNAs in a discrete domain within the nucleolus. Mol. Cell. Biol. 27, 4157-4165 (2007).
-
(2007)
Mol. Cell. Biol
, vol.27
, pp. 4157-4165
-
-
Carneiro, T.1
-
22
-
-
33645727798
-
Surveillance of nuclear-restricted pre-ribosomes within a subnucleolar region of Saccharomyces cerevisiae
-
Dez, C., Houseley, J., Tollervey, D. Surveillance of nuclear-restricted pre-ribosomes within a subnucleolar region of Saccharomyces cerevisiae. EMBO J. 25, 1534-1546 (2006).
-
(2006)
EMBO J
, vol.25
, pp. 1534-1546
-
-
Dez, C.1
Houseley, J.2
Tollervey, D.3
-
23
-
-
53949109201
-
Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast
-
Grzechnik, P., Kufel, J. Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast. Mol. Cell 32, 247-258 (2008).
-
(2008)
Mol. Cell
, vol.32
, pp. 247-258
-
-
Grzechnik, P.1
Kufel, J.2
-
24
-
-
65649125644
-
Nuclear RNA surveillance: No sign of substrates tailing off
-
Anderson, J. T., Wang, X. Nuclear RNA surveillance: no sign of substrates tailing off. Crit. Rev. Biochem. Mol. Biol. 44, 16-24 (2009).
-
(2009)
Crit. Rev. Biochem. Mol. Biol
, vol.44
, pp. 16-24
-
-
Anderson, J.T.1
Wang, X.2
-
25
-
-
84999725867
-
Current perspectives on the role of TRAMP in nuclear RNA surveillance and quality control
-
Wong, C.-M., Kewu, P., Zhe, H., Lee, J. T. Current perspectives on the role of TRAMP in nuclear RNA surveillance and quality control. RRBC 5, 111-117 (2015).
-
(2015)
RRBC
, vol.5
, pp. 111-117
-
-
Wong, C.-M.1
Kewu, P.2
Zhe, H.3
Lee, J.T.4
-
26
-
-
80054811443
-
Air1 zinc knuckles 4 and 5 and a conserved IWRXY motif are critical for the function and integrity of the Trf4/5-Air1/2-Mtr4 polyadenylation (TRAMP) RNA quality control complex
-
Fasken, M. B. et al. Air1 zinc knuckles 4 and 5 and a conserved IWRXY motif are critical for the function and integrity of the Trf4/5-Air1/2-Mtr4 polyadenylation (TRAMP) RNA quality control complex. J. Biol. Chem. 286, 37429-37445 (2011).
-
(2011)
J. Biol. Chem
, vol.286
, pp. 37429-37445
-
-
Fasken, M.B.1
-
27
-
-
80051730960
-
Interaction profiling identifies the human nuclear exosome targeting complex
-
Lubas, M. et al. Interaction profiling identifies the human nuclear exosome targeting complex. Mol. Cell 43, 624-637 (2011).
-
(2011)
Mol. Cell
, vol.43
, pp. 624-637
-
-
Lubas, M.1
-
28
-
-
84897459814
-
An atlas of active enhancers across human cell types and tissues
-
Andersson, R. et al. An atlas of active enhancers across human cell types and tissues. Nature 507, 455-461 (2014).
-
(2014)
Nature
, vol.507
, pp. 455-461
-
-
Andersson, R.1
-
29
-
-
84930221682
-
RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3'-end extended forms of snRNAs
-
Hrossova, D. et al. RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3'-end extended forms of snRNAs. Nucleic Acids Res. 43, 4236-4248 (2015).
-
(2015)
Nucleic Acids Res
, vol.43
, pp. 4236-4248
-
-
Hrossova, D.1
-
30
-
-
84890145122
-
The human cap-binding complex is functionally connected to the nuclear RNA exosome
-
Andersen, P. R. et al. The human cap-binding complex is functionally connected to the nuclear RNA exosome. Nat. Struct. Mol. Biol. 20, 1367-1376 (2013).
-
(2013)
Nat. Struct. Mol. Biol
, vol.20
, pp. 1367-1376
-
-
Andersen, P.R.1
-
31
-
-
84920950118
-
The human nuclear exosome targeting complex is loaded onto newly synthesized RNA to direct early ribonucleolysis
-
Lubas, M. et al. The human nuclear exosome targeting complex is loaded onto newly synthesized RNA to direct early ribonucleolysis. Cell Rep. 10, 178-192 (2015).
-
(2015)
Cell Rep
, vol.10
, pp. 178-192
-
-
Lubas, M.1
-
32
-
-
84890187791
-
CBC-ARS2 stimulates 3'-end maturation of multiple RNA families and favors cap-proximal processing
-
Hallais, M. et al. CBC-ARS2 stimulates 3'-end maturation of multiple RNA families and favors cap-proximal processing. Nat. Struct. Mol. Biol. 20, 1358-1366 (2013).
-
(2013)
Nat. Struct. Mol. Biol
, vol.20
, pp. 1358-1366
-
-
Hallais, M.1
-
33
-
-
34548232365
-
Inference of macromolecular assemblies from crystalline state
-
Krissinel, E., Henrick, K. Inference of macromolecular assemblies from crystalline state. J. Mol. Biol. 372, 774-797 (2007).
-
(2007)
J. Mol. Biol
, vol.372
, pp. 774-797
-
-
Krissinel, E.1
Henrick, K.2
-
34
-
-
84872862461
-
Proline: The distribution, frequency, positioning, and common functional roles of proline and polyproline sequences in the human proteome
-
Morgan, A. A., Rubenstein, E. Proline: the distribution, frequency, positioning, and common functional roles of proline and polyproline sequences in the human proteome. PLoS ONE 8, e53785-e53789 (2013).
-
(2013)
PLoS ONE
, vol.8
, pp. e53785-e53789
-
-
Morgan, A.A.1
Rubenstein, E.2
-
35
-
-
0035823011
-
A novel peptide recognition mode revealed by the X-ray structure of a core U2AF35/U2AF65 heterodimer
-
Kielkopf, C. L., Rodionova, N. A., Green, M. R., Burley, S. K. A novel peptide recognition mode revealed by the X-ray structure of a core U2AF35/U2AF65 heterodimer. Cell 106, 595-605 (2001).
-
(2001)
Cell
, vol.106
, pp. 595-605
-
-
Kielkopf, C.L.1
Rodionova, N.A.2
Green, M.R.3
Burley, S.K.4
-
36
-
-
0038298868
-
Structural basis for the molecular recognition between human splicing factors U2AF65 and SF1/mBBP
-
Selenko, P. et al. Structural basis for the molecular recognition between human splicing factors U2AF65 and SF1/mBBP. Mol. Cell 11, 965-976 (2003).
-
(2003)
Mol. Cell
, vol.11
, pp. 965-976
-
-
Selenko, P.1
-
37
-
-
34548600067
-
U2AF-homology motif interactions are required for alternative splicing regulation by SPF45
-
Corsini, L. et al. U2AF-homology motif interactions are required for alternative splicing regulation by SPF45. Nat. Struct. Mol. Biol. 14, 620-629 (2007).
-
(2007)
Nat. Struct. Mol. Biol
, vol.14
, pp. 620-629
-
-
Corsini, L.1
-
38
-
-
77649269977
-
The indispensable N-terminal half of eIF3j/HCR1 cooperates with its structurally conserved binding partner eIF3b/PRT1-RRM and with eIF1A in stringent AUG selection
-
ElAntak, L. et al. The indispensable N-terminal half of eIF3j/HCR1 cooperates with its structurally conserved binding partner eIF3b/PRT1-RRM and with eIF1A in stringent AUG selection. J. Mol. Biol. 396, 1097-1116 (2010).
-
(2010)
J. Mol. Biol
, vol.396
, pp. 1097-1116
-
-
ElAntak, L.1
-
39
-
-
82955205878
-
Crystallographic analysis of polypyrimidine tract-binding protein-Raver1 interactions involved in regulation of alternative splicing
-
Joshi, A. et al. Crystallographic analysis of polypyrimidine tract-binding protein-Raver1 interactions involved in regulation of alternative splicing. Structure 19, 1816-1825 (2011).
-
(2011)
Structure
, vol.19
, pp. 1816-1825
-
-
Joshi, A.1
-
40
-
-
33748372311
-
A peptide motif in Raver1 mediates splicing repression by interaction with the PTB RRM2 domain
-
Rideau, A. P. et al. A peptide motif in Raver1 mediates splicing repression by interaction with the PTB RRM2 domain. Nat. Struct. Mol. Biol. 13, 839-848 (2006).
-
(2006)
Nat. Struct. Mol. Biol
, vol.13
, pp. 839-848
-
-
Rideau, A.P.1
-
41
-
-
0028144831
-
The prespliceosome components SAP 49 and SAP 145 interact in a complex implicated in tethering U2 snRNP to the branch site
-
Champion-Arnaud, P., Reed, R. The prespliceosome components SAP 49 and SAP 145 interact in a complex implicated in tethering U2 snRNP to the branch site. Genes Dev. 8, 1974-1983 (1994).
-
(1994)
Genes Dev
, vol.8
, pp. 1974-1983
-
-
Champion-Arnaud, P.1
Reed, R.2
-
42
-
-
84937213168
-
The BioPlex network: A systematic exploration of the human interactome
-
Huttlin, E. L. et al. The BioPlex network: a systematic exploration of the human interactome. Cell 162, 425-440 (2015).
-
(2015)
Cell
, vol.162
, pp. 425-440
-
-
Huttlin, E.L.1
-
43
-
-
84948067587
-
A human interactome in three quantitative dimensions organized by stoichiometries and abundances
-
Hein, M. Y. et al. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. Cell 163, 712-723 (2015).
-
(2015)
Cell
, vol.163
, pp. 712-723
-
-
Hein, M.Y.1
-
44
-
-
0041743177
-
Spermatogenetic expression of RNA-binding motif protein 7, a protein that interacts with splicing factors
-
Guo, T. B. et al. Spermatogenetic expression of RNA-binding motif protein 7, a protein that interacts with splicing factors. J. Androl. 24, 204-214 (2003).
-
(2003)
J. Androl
, vol.24
, pp. 204-214
-
-
Guo, T.B.1
-
45
-
-
78649714014
-
Analysis and design of RNA sequencing experiments for identifying isoform regulation
-
Katz, Y., Wang, E. T., Airoldi, E. M., Burge, C. B. Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat. Methods 7, 1009-1015 (2010).
-
(2010)
Nat. Methods
, vol.7
, pp. 1009-1015
-
-
Katz, Y.1
Wang, E.T.2
Airoldi, E.M.3
Burge, C.B.4
-
46
-
-
84920954858
-
Nuclear stability and transcriptional directionality separate functionally distinct RNA species
-
Andersson, R. et al. Nuclear stability and transcriptional directionality separate functionally distinct RNA species. Nat. Commun. 5, 5336 (2014).
-
(2014)
Nat. Commun
, vol.5
, pp. 5336
-
-
Andersson, R.1
-
47
-
-
84856945928
-
The RNA recognition motif protein RBM11 is a novel tissue-specific splicing regulator
-
Pedrotti, S., Busà, R., Compagnucci, C., Sette, C. The RNA recognition motif protein RBM11 is a novel tissue-specific splicing regulator. Nucleic Acids Res. 40, 1021-1032 (2012).
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 1021-1032
-
-
Pedrotti, S.1
Busà, R.2
Compagnucci, C.3
Sette, C.4
-
48
-
-
76449106188
-
Integration scaling, space-group assignment and post-refinement
-
Kabsch, W. Integration, scaling, space-group assignment and post-refinement. Acta Crystallogr. D Biol. Crystallogr. 66, 133-144 (2010).
-
(2010)
Acta Crystallogr. D Biol. Crystallogr
, vol.66
, pp. 133-144
-
-
Kabsch, W.1
-
49
-
-
75649151032
-
Xia2: An expert system for macromolecular crystallography data reduction
-
Winter, G. xia2: an expert system for macromolecular crystallography data reduction. J. Appl. Cryst. 43, 186-190 (2010).
-
(2010)
J. Appl. Cryst
, vol.43
, pp. 186-190
-
-
Winter, G.1
-
50
-
-
79953737180
-
Overview of the CCP4 suite and current developments
-
Winn, M. D. et al. Overview of the CCP4 suite and current developments. Acta Crystallogr. D Biol. Crystallogr. 67, 235-242 (2011).
-
(2011)
Acta Crystallogr. D Biol. Crystallogr
, vol.67
, pp. 235-242
-
-
Winn, M.D.1
-
51
-
-
66249112826
-
Decision-making in structure solution using Bayesian estimates of map quality: The PHENIX AutoSol wizard
-
Terwilliger, T. C. et al. Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard. Acta Crystallogr. D Biol. Crystallogr. 65, 582-601 (2009).
-
(2009)
Acta Crystallogr. D Biol. Crystallogr
, vol.65
, pp. 582-601
-
-
Terwilliger, T.C.1
-
52
-
-
33748337934
-
The Buccaneer software for automated model building. 1. Tracing protein chains
-
Cowtan, K. The Buccaneer software for automated model building. 1. Tracing protein chains. Acta Crystallogr. D Biol. Crystallogr. 62, 1002-1011 (2006).
-
(2006)
Acta Crystallogr. D Biol. Crystallogr
, vol.62
, pp. 1002-1011
-
-
Cowtan, K.1
-
53
-
-
77949535720
-
Features and development of Coot
-
Emsley, P., Lohkamp, B., Scott, W. G., Cowtan, K. Features and development of Coot. Acta Crystallogr. D Biol. Crystallogr. 66, 486-501 (2010).
-
(2010)
Acta Crystallogr. D Biol. Crystallogr
, vol.66
, pp. 486-501
-
-
Emsley, P.1
Lohkamp, B.2
Scott, W.G.3
Cowtan, K.4
-
54
-
-
84860273177
-
Towards automated crystallographic structure refinement with phenix.refine
-
Afonine, P. V. et al. Towards automated crystallographic structure refinement with phenix.refine. Acta Crystallogr. D Biol. Crystallogr. 68, 352-367 (2012).
-
(2012)
Acta Crystallogr. D Biol. Crystallogr
, vol.68
, pp. 352-367
-
-
Afonine, P.V.1
-
55
-
-
34447508216
-
Phaser crystallographic software
-
McCoy, A. J. et al. Phaser crystallographic software. J. Appl. Cryst. 40, 658-674 (2007).
-
(2007)
J. Appl. Cryst
, vol.40
, pp. 658-674
-
-
McCoy, A.J.1
|