메뉴 건너뛰기




Volumn 43, Issue 5, 2015, Pages 2625-2637

Unraveling the mechanistic features of RNA polymerase II termination by the 5'-3' exoribonuclease Rat1

Author keywords

[No Author keywords available]

Indexed keywords

EXORIBONUCLEASE; PROTEIN RAT1; RNA POLYMERASE II; UNCLASSIFIED DRUG; ADENOSINE TRIPHOSPHATE; FUNGAL RNA; NUCLEAR PROTEIN; RAI1 PROTEIN, S CEREVISIAE; RAT1 PROTEIN, S CEREVISIAE; RTT103 PROTEIN, S CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEIN; TRANSCRIPTION FACTOR;

EID: 84937597324     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkv133     Document Type: Article
Times cited : (26)

References (44)
  • 2
    • 0035921929 scopus 로고    scopus 로고
    • RNA-binding protein Nrd1 directs poly (A)-independent 3'-end formation of RNA polymerase II transcripts
    • Steinmetz, E. J., Conrad, N. K., Brow, D. A. and Corden, J. L. (2001) RNA-binding protein Nrd1 directs poly (A)-independent 3'-end formation of RNA polymerase II transcripts. Nature, 413, 327-331.
    • (2001) Nature , vol.413 , pp. 327-331
    • Steinmetz, E.J.1    Conrad, N.K.2    Brow, D.A.3    Corden, J.L.4
  • 3
    • 33751504083 scopus 로고    scopus 로고
    • Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase
    • Steinmetz, E. J., Warren, C. L., Kuehner, J. N., Panbehi, B., Ansari, A. Z. and Brow, D. A. (2006) Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase. Mol. Cell, 24, 735-746.
    • (2006) Mol. Cell , vol.24 , pp. 735-746
    • Steinmetz, E.J.1    Warren, C.L.2    Kuehner, J.N.3    Panbehi, B.4    Ansari, A.Z.5    Brow, D.A.6
  • 5
    • 9644308046 scopus 로고    scopus 로고
    • Human 5' → 3' exonuclease Xrn2 promotes transcription termination at co-transcriptional cleavage sites
    • West, S., Gromak, N. and Proudfoot, N. J. (2004) Human 5' → 3' exonuclease Xrn2 promotes transcription termination at co-transcriptional cleavage sites. Nature, 432, 522-525.
    • (2004) Nature , vol.432 , pp. 522-525
    • West, S.1    Gromak, N.2    Proudfoot, N.J.3
  • 6
    • 0034610344 scopus 로고    scopus 로고
    • Novel features of the XRN-family in Arabidopsis: Evidence that AtXRN4, one of several orthologs of nuclear Xrn2p/Rat1p, functions in the cytoplasm
    • Kastenmayer, J. P. and Green, P. J. (2000) Novel features of the XRN-family in Arabidopsis: evidence that AtXRN4, one of several orthologs of nuclear Xrn2p/Rat1p, functions in the cytoplasm. Proc. Natl. Acad. Sci. U. S. A., 97, 13985-13990.
    • (2000) Proc. Natl. Acad. Sci. U. S. A. , vol.97 , pp. 13985-13990
    • Kastenmayer, J.P.1    Green, P.J.2
  • 7
    • 84877819839 scopus 로고    scopus 로고
    • XRN 5'→3' exoribonucleases: Structure, mechanisms and functions
    • Nagarajan, V. K., Jones, C. I., Newbury, S. F. and Green, P. J. (2013) XRN 5'→3' exoribonucleases: structure, mechanisms and functions. Biochim. Biophys. Acta, 1829, 590-603.
    • (2013) Biochim. Biophys. Acta , vol.1829 , pp. 590-603
    • Nagarajan, V.K.1    Jones, C.I.2    Newbury, S.F.3    Green, P.J.4
  • 8
    • 77957340903 scopus 로고    scopus 로고
    • Identification of a quality-control mechanism for mRNA 5'-end capping
    • Jiao, X., Xiang, S., Oh, C., Martin, C. E., Tong, L. and Kiledjian, M. (2010) Identification of a quality-control mechanism for mRNA 5'-end capping. Nature, 467, 608-611.
    • (2010) Nature , vol.467 , pp. 608-611
    • Jiao, X.1    Xiang, S.2    Oh, C.3    Martin, C.E.4    Tong, L.5    Kiledjian, M.6
  • 9
    • 84880048366 scopus 로고    scopus 로고
    • Dismantling promoter-driven RNA polymerase II transcription complexes in vitro by the termination factor Rat1
    • Pearson, E. L. and Moore, C. L. (2013) Dismantling promoter-driven RNA polymerase II transcription complexes in vitro by the termination factor Rat1. J. Biol. Chem., 288, 19750-19759.
    • (2013) J. Biol. Chem. , vol.288 , pp. 19750-19759
    • Pearson, E.L.1    Moore, C.L.2
  • 10
    • 69249157270 scopus 로고    scopus 로고
    • Torpedo nuclease Rat1 is insufficient to terminate RNA polymerase II in vitro
    • Dengl, S. and Cramer, P. (2009) Torpedo nuclease Rat1 is insufficient to terminate RNA polymerase II in vitro. J. Biol. Chem., 284, 21270-21279.
    • (2009) J. Biol. Chem. , vol.284 , pp. 21270-21279
    • Dengl, S.1    Cramer, P.2
  • 12
    • 33645097171 scopus 로고    scopus 로고
    • Translocation by T7 RNA polymerase: A sensitively poised Brownian ratchet
    • Guo, Q. and Sousa, R. (2006) Translocation by T7 RNA polymerase: a sensitively poised Brownian ratchet. J Mol. Biol., 358, 241-254.
    • (2006) J Mol. Biol. , vol.358 , pp. 241-254
    • Guo, Q.1    Sousa, R.2
  • 13
    • 0032478549 scopus 로고    scopus 로고
    • RNA polymerase as a molecular motor
    • Gelles, J. and Landick, R. (1998) RNA polymerase as a molecular motor. Cell, 93, 13-16.
    • (1998) Cell , vol.93 , pp. 13-16
    • Gelles, J.1    Landick, R.2
  • 15
    • 33749681925 scopus 로고    scopus 로고
    • A mechanism of nucleotide misincorporation during transcription due to template-strand misalignment
    • Pomerantz, R. T., Temiakov, D., Anikin, M., Vassylyev, D. G. and McAllister, W. T. (2006) A mechanism of nucleotide misincorporation during transcription due to template-strand misalignment. Mol. Cell, 24, 245-255.
    • (2006) Mol. Cell , vol.24 , pp. 245-255
    • Pomerantz, R.T.1    Temiakov, D.2    Anikin, M.3    Vassylyev, D.G.4    McAllister, W.T.5
  • 16
    • 0026531975 scopus 로고
    • Accuracy of wheat-germ RNA polymerase II. General enzymatic properties and effect of template conformational transition from right-handed B-DNA to left-handed Z-DNA
    • de Mercoyrol, L., Corda, Y., Job, C. and Job, D. (1992) Accuracy of wheat-germ RNA polymerase II. General enzymatic properties and effect of template conformational transition from right-handed B-DNA to left-handed Z-DNA. Eur. J. Biochem., 206, 49-58.
    • (1992) Eur. J. Biochem. , vol.206 , pp. 49-58
    • De Mercoyrol, L.1    Corda, Y.2    Job, C.3    Job, D.4
  • 17
    • 0030987775 scopus 로고    scopus 로고
    • Transcription elongation through DNA arrest sites. A multistep process involving both RNA polymerase II subunit RPB9 and TFIIS
    • Awrey, D. E., Weilbaecher, R. G., Hemming, S. A., Orlicky, S. M., Kane, C. M. and Edwards, A. M. (1997) Transcription elongation through DNA arrest sites. A multistep process involving both RNA polymerase II subunit RPB9 and TFIIS. J. Biol. Chem., 272, 14747-14754.
    • (1997) J. Biol. Chem. , vol.272 , pp. 14747-14754
    • Awrey, D.E.1    Weilbaecher, R.G.2    Hemming, S.A.3    Orlicky, S.M.4    Kane, C.M.5    Edwards, A.M.6
  • 18
    • 0026648570 scopus 로고
    • The RNA polymerase II ternary complex cleaves the nascent transcript in a 3'-5' direction in the presence of elongation factor SII
    • Izban, M. G. and Luse, D. S. (1992) The RNA polymerase II ternary complex cleaves the nascent transcript in a 3'-5' direction in the presence of elongation factor SII. Genes Dev., 6, 1342-1356.
    • (1992) Genes Dev. , vol.6 , pp. 1342-1356
    • Izban, M.G.1    Luse, D.S.2
  • 19
    • 0026697999 scopus 로고
    • Elongation factor-dependent transcript shortening by template-engaged RNA polymerase II
    • Reines, D. (1992) Elongation factor-dependent transcript shortening by template-engaged RNA polymerase II. J. Biol. Chem., 267, 3795-3800.
    • (1992) J. Biol. Chem. , vol.267 , pp. 3795-3800
    • Reines, D.1
  • 20
    • 79956308538 scopus 로고    scopus 로고
    • Evolution of two modes of intrinsic RNA polymerase transcript cleavage
    • Ruan, W., Lehmann, E., Thomm, M., Kostrewa, D. and Cramer, P. (2011) Evolution of two modes of intrinsic RNA polymerase transcript cleavage. J. Biol. Chem., 286, 18701-18707.
    • (2011) J. Biol. Chem. , vol.286 , pp. 18701-18707
    • Ruan, W.1    Lehmann, E.2    Thomm, M.3    Kostrewa, D.4    Cramer, P.5
  • 21
    • 34249726498 scopus 로고    scopus 로고
    • Stimulation of RNA polymerase II transcript cleavage activity contributes to maintain transcriptional fidelity in yeast
    • Koyama, H., Ito, T., Nakanishi, T. and Sekimizu, K. (2007) Stimulation of RNA polymerase II transcript cleavage activity contributes to maintain transcriptional fidelity in yeast. Genes Cells 12, 547-559.
    • (2007) Genes Cells , vol.12 , pp. 547-559
    • Koyama, H.1    Ito, T.2    Nakanishi, T.3    Sekimizu, K.4
  • 22
    • 0032524661 scopus 로고    scopus 로고
    • Transcriptional fidelity and proofreading by RNA polymerase II
    • Thomas, M. J., Platas, A. A. and Hawley, D. K. (1998) Transcriptional fidelity and proofreading by RNA polymerase II. Cell, 93, 627-637.
    • (1998) Cell , vol.93 , pp. 627-637
    • Thomas, M.J.1    Platas, A.A.2    Hawley, D.K.3
  • 23
    • 67449116330 scopus 로고    scopus 로고
    • Structural basis of transcription: Mismatch-specific fidelity mechanisms and paused RNA polymerase II with frayed RNA
    • Sydow, J. F., Brueckner, F., Cheung, A. C., Damsma, G. E., Dengl, S., Lehmann, E., Vassylyev, D. and Cramer, P. (2009) Structural basis of transcription: mismatch-specific fidelity mechanisms and paused RNA polymerase II with frayed RNA. Mol. Cell, 34, 710-721.
    • (2009) Mol. Cell , vol.34 , pp. 710-721
    • Sydow, J.F.1    Brueckner, F.2    Cheung, A.C.3    Damsma, G.E.4    Dengl, S.5    Lehmann, E.6    Vassylyev, D.7    Cramer, P.8
  • 24
    • 67049100283 scopus 로고    scopus 로고
    • Mechanism of sequence-specific pausing of bacterial RNA polymerase
    • Kireeva, M. L. and Kashlev, M. (2009) Mechanism of sequence-specific pausing of bacterial RNA polymerase. Proc. Natl. Acad. Sci. U. S. A., 106, 8900-8905.
    • (2009) Proc. Natl. Acad. Sci. U. S. A. , vol.106 , pp. 8900-8905
    • Kireeva, M.L.1    Kashlev, M.2
  • 26
    • 0033039863 scopus 로고    scopus 로고
    • Specific transcriptional pausing activates polyadenylation in a coupled in vitro system
    • Yonaha, M. and Proudfoot, N. J. (1999) Specific transcriptional pausing activates polyadenylation in a coupled in vitro system. Mol. Cell, 3, 593-600.
    • (1999) Mol. Cell , vol.3 , pp. 593-600
    • Yonaha, M.1    Proudfoot, N.J.2
  • 27
    • 33646556092 scopus 로고    scopus 로고
    • Pause sites promote transcriptional termination of mammalian RNA polymerase II
    • Gromak, N., West, S. and Proudfoot, N. J. (2006) Pause sites promote transcriptional termination of mammalian RNA polymerase II. Mol. Cell. Biol., 26, 3986-3996.
    • (2006) Mol. Cell. Biol. , vol.26 , pp. 3986-3996
    • Gromak, N.1    West, S.2    Proudfoot, N.J.3
  • 28
    • 0043244876 scopus 로고    scopus 로고
    • Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage
    • Kettenberger, H., Armache, K. J. and Cramer, P. (2003) Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage. Cell, 114, 347-357.
    • (2003) Cell , vol.114 , pp. 347-357
    • Kettenberger, H.1    Armache, K.J.2    Cramer, P.3
  • 29
    • 0346515712 scopus 로고    scopus 로고
    • Assays and affinity purification of biotinylated and nonbiotinylated forms of double-tagged core RNA polymerase II from Saccharomyces cerevisiae
    • Kireeva, M. L., Lubkowska, L., Komissarova, N. and Kashlev, M. (2003) Assays and affinity purification of biotinylated and nonbiotinylated forms of double-tagged core RNA polymerase II from Saccharomyces cerevisiae. Methods Enzymol., 370, 138-155.
    • (2003) Methods Enzymol. , vol.370 , pp. 138-155
    • Kireeva, M.L.1    Lubkowska, L.2    Komissarova, N.3    Kashlev, M.4
  • 30
    • 0037495037 scopus 로고    scopus 로고
    • Architecture of initiation-competent 12-subunit RNA polymerase II
    • Armache, K. J., Kettenberger, H. and Cramer, P. (2003) Architecture of initiation-competent 12-subunit RNA polymerase II. Proc. Natl. Acad. Sci. U. S. A., 100, 6964-6968.
    • (2003) Proc. Natl. Acad. Sci. U. S. A. , vol.100 , pp. 6964-6968
    • Armache, K.J.1    Kettenberger, H.2    Cramer, P.3
  • 31
    • 33645739547 scopus 로고    scopus 로고
    • Snf2/Swi2-related ATPase Mot1 drives displacement of TATA-binding protein by gripping DNA
    • Sprouse, R. O., Brenowitz, M. and Auble, D. T. (2006) Snf2/Swi2-related ATPase Mot1 drives displacement of TATA-binding protein by gripping DNA. EMBO J., 25, 1492-1504.
    • (2006) EMBO J. , vol.25 , pp. 1492-1504
    • Sprouse, R.O.1    Brenowitz, M.2    Auble, D.T.3
  • 32
    • 64749111945 scopus 로고    scopus 로고
    • Structure and function of the 5'→3' exoribonuclease Rat1 and its activating partner Rai1
    • Xiang, S., Cooper-Morgan, A., Jiao, X., Kiledjian, M., Manley, J. L. and Tong, L. (2009) Structure and function of the 5'→3' exoribonuclease Rat1 and its activating partner Rai1. Nature, 458, 784-788.
    • (2009) Nature , vol.458 , pp. 784-788
    • Xiang, S.1    Cooper-Morgan, A.2    Jiao, X.3    Kiledjian, M.4    Manley, J.L.5    Tong, L.6
  • 33
    • 34547204502 scopus 로고    scopus 로고
    • A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing
    • Toulokhonov, I., Zhang, J., Palangat, M. and Landick, R. (2007) A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing. Mol. Cell, 27, 406-419.
    • (2007) Mol. Cell , vol.27 , pp. 406-419
    • Toulokhonov, I.1    Zhang, J.2    Palangat, M.3    Landick, R.4
  • 35
    • 33645844251 scopus 로고    scopus 로고
    • The role of Rat1 in coupling mRNA 3'-end processing to transcription termination: Implications for a unified allosteric-torpedo model
    • Luo, W., Johnson, A. W. and Bentley, D. L. (2006) The role of Rat1 in coupling mRNA 3'-end processing to transcription termination: implications for a unified allosteric-torpedo model. Genes Dev., 20, 954-965.
    • (2006) Genes Dev. , vol.20 , pp. 954-965
    • Luo, W.1    Johnson, A.W.2    Bentley, D.L.3
  • 36
    • 0027320701 scopus 로고
    • A turnover pathway for both stable and unstable mRNAs in yeast: Evidence for a requirement for deadenylation
    • Decker, C. J. and Parker, R. (1993) A turnover pathway for both stable and unstable mRNAs in yeast: evidence for a requirement for deadenylation. Genes Dev., 7, 1632-1643.
    • (1993) Genes Dev. , vol.7 , pp. 1632-1643
    • Decker, C.J.1    Parker, R.2
  • 37
    • 0031587993 scopus 로고    scopus 로고
    • Structural modifications of RNA influence the 5' exoribonucleolytic hydrolysis by XRN1 and HKE1 of Saccharomyces cerevisiae
    • Poole, T. L. and Stevens, A. (1997) Structural modifications of RNA influence the 5' exoribonucleolytic hydrolysis by XRN1 and HKE1 of Saccharomyces cerevisiae. Biochem. Biophys. Res. Commun., 235, 799-805.
    • (1997) Biochem. Biophys. Res. Commun. , vol.235 , pp. 799-805
    • Poole, T.L.1    Stevens, A.2
  • 38
    • 79951969817 scopus 로고    scopus 로고
    • Coupled 5' nucleotide recognition and processivity in Xrn1-mediated mRNA decay
    • Jinek, M., Coyle, S. M. and Doudna, J. A. (2011) Coupled 5' nucleotide recognition and processivity in Xrn1-mediated mRNA decay. Mol. Cell, 41, 600-608.
    • (2011) Mol. Cell , vol.41 , pp. 600-608
    • Jinek, M.1    Coyle, S.M.2    Doudna, J.A.3
  • 39
    • 47549116548 scopus 로고    scopus 로고
    • Genome-wide location analysis reveals a role of TFIIS in RNA polymerase III transcription
    • Ghavi-Helm, Y., Michaut, M., Acker, J., Aude, J. C., Thuriaux, P., Werner, M. and Soutourina, J. (2008) Genome-wide location analysis reveals a role of TFIIS in RNA polymerase III transcription. Genes Dev., 22, 1934-1947.
    • (2008) Genes Dev. , vol.22 , pp. 1934-1947
    • Ghavi-Helm, Y.1    Michaut, M.2    Acker, J.3    Aude, J.C.4    Thuriaux, P.5    Werner, M.6    Soutourina, J.7
  • 40
    • 55949106494 scopus 로고    scopus 로고
    • The Rat1p 5' to 3' exonuclease degrades telomeric repeat-containing RNA and promotes telomere elongation in Saccharomyces cerevisiae
    • Luke, B., Panza, A., Redon, S., Iglesias, N., Li, Z. and Lingner, J. (2008) The Rat1p 5' to 3' exonuclease degrades telomeric repeat-containing RNA and promotes telomere elongation in Saccharomyces cerevisiae. Mol. Cell, 32, 465-477.
    • (2008) Mol. Cell , vol.32 , pp. 465-477
    • Luke, B.1    Panza, A.2    Redon, S.3    Iglesias, N.4    Li, Z.5    Lingner, J.6
  • 41
    • 0032476005 scopus 로고    scopus 로고
    • A human RNA polymerase II transcription termination factor is a SWI2/SNF2 family member
    • Liu, M., Xie, Z. and Price, D. H. (1998) A human RNA polymerase II transcription termination factor is a SWI2/SNF2 family member. J. Biol. Chem., 273, 25541-25544.
    • (1998) J. Biol. Chem. , vol.273 , pp. 25541-25544
    • Liu, M.1    Xie, Z.2    Price, D.H.3
  • 42
    • 0031438709 scopus 로고    scopus 로고
    • Drosophila factor 2, an RNA polymerase II transcript release factor, has DNA-dependent ATPase activity
    • Xie, Z. and Price, D. (1997) Drosophila factor 2, an RNA polymerase II transcript release factor, has DNA-dependent ATPase activity. J. Biol. Chem., 272, 31902-31907.
    • (1997) J. Biol. Chem. , vol.272 , pp. 31902-31907
    • Xie, Z.1    Price, D.2
  • 43
    • 84899756004 scopus 로고    scopus 로고
    • Regulation of RNA polymerase II termination by phosphorylation of Gdown1
    • Guo, J., Turek, M. E. and Price, D. H. (2014) Regulation of RNA polymerase II termination by phosphorylation of Gdown1. J. Biol. Chem., 289, 12657-12665.
    • (2014) J. Biol. Chem. , vol.289 , pp. 12657-12665
    • Guo, J.1    Turek, M.E.2    Price, D.H.3
  • 44
    • 84880144255 scopus 로고    scopus 로고
    • A bacterial-like mechanism for transcription termination by the Sen1p helicase in budding yeast
    • Porrua, O. and Libri, D. (2013) A bacterial-like mechanism for transcription termination by the Sen1p helicase in budding yeast. Nat. Struct. Mol. Biol., 20, 884-891.
    • (2013) Nat. Struct. Mol. Biol. , vol.20 , pp. 884-891
    • Porrua, O.1    Libri, D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.