-
1
-
-
77953711880
-
Translocation by multi-subunit RNA polymerases
-
Kireeva M, Kashlev M, Burton ZF (2010) Translocation by multi-subunit RNA polymerases. Biochim Biophys Acta 1799(5-6):389-401.
-
(2010)
Biochim Biophys Acta
, vol.1799
, Issue.5-6
, pp. 389-401
-
-
Kireeva, M.1
Kashlev, M.2
Burton, Z.F.3
-
2
-
-
70549108206
-
Macromolecular micromovements: How RNA polymerase translocates
-
Svetlov V, Nudler E (2009) Macromolecular micromovements: How RNA polymerase translocates. Curr Opin Struct Biol 19(6):701-707.
-
(2009)
Curr Opin Struct Biol
, vol.19
, Issue.6
, pp. 701-707
-
-
Svetlov, V.1
Nudler, E.2
-
3
-
-
84901677567
-
Transcription elongation: Heterogeneous tracking of RNA polymerase and its biological implications
-
Imashimizu M, Shimamoto N, Oshima T, Kashlev M (2014) Transcription elongation: Heterogeneous tracking of RNA polymerase and its biological implications. Tran sc ri pt ion 5(1):e28285-1-e28285-10.
-
(2014)
Tran Sc Ri Pt Ion
, vol.5
, Issue.1
-
-
Imashimizu, M.1
Shimamoto, N.2
Oshima, T.3
Kashlev, M.4
-
4
-
-
84888984346
-
NusG-Spt5 proteins-Universal tools for transcription modification and communication
-
Tomar SK, Artsimovitch I (2013) NusG-Spt5 proteins-Universal tools for transcription modification and communication. Chem Rev 113(11):8604-8619.
-
(2013)
Chem Rev
, vol.113
, Issue.11
, pp. 8604-8619
-
-
Tomar, S.K.1
Artsimovitch, I.2
-
5
-
-
36549013619
-
RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo
-
DOI 10.1038/ng.2007.26, PII NG200726
-
Zeitlinger J, et al. (2007) RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet 39(12):1512-1516. (Pubitemid 350191345)
-
(2007)
Nature Genetics
, vol.39
, Issue.12
, pp. 1512-1516
-
-
Zeitlinger, J.1
Stark, A.2
Kellis, M.3
Hong, J.-W.4
Nechaev, S.5
Adelman, K.6
Levine, M.7
Young, R.A.8
-
6
-
-
84860504575
-
Regulating the regulators: The pervasive effects of Pol II pausing on stimulus-responsive gene networks
-
Gilchrist DA, et al. (2012) Regulating the regulators: The pervasive effects of Pol II pausing on stimulus-responsive gene networks. Genes Dev 26(9):933-944.
-
(2012)
Genes Dev
, vol.26
, Issue.9
, pp. 933-944
-
-
Gilchrist, D.A.1
-
7
-
-
84873408886
-
Intrinsic translocation barrier as an initial step in pausing by RNA polymerase II
-
Imashimizu M, et al. (2013) Intrinsic translocation barrier as an initial step in pausing by RNA polymerase II. J Mol Biol 425(4):697-712.
-
(2013)
J Mol Biol
, vol.425
, Issue.4
, pp. 697-712
-
-
Imashimizu, M.1
-
8
-
-
74549132843
-
Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila
-
Nechaev S, et al. (2010) Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila. Science 327(5963):335-338.
-
(2010)
Science
, vol.327
, Issue.5963
, pp. 335-338
-
-
Nechaev, S.1
-
9
-
-
84872386768
-
Structural basis of transcription elongation
-
Martinez-Rucobo FW, Cramer P (2013) Structural basis of transcription elongation. Biochim Biophys Acta 1829(1):9-19.
-
(2013)
Biochim Biophys Acta
, vol.1829
, Issue.1
, pp. 9-19
-
-
Martinez-Rucobo, F.W.1
Cramer, P.2
-
10
-
-
80051538984
-
RNA transcript 3′-proximal sequence affects translocation bias of RNA polymerase
-
Hein PP, Palangat M, Landick R (2011) RNA transcript 3′-proximal sequence affects translocation bias of RNA polymerase. Biochemistry 50(32):7002-7014.
-
(2011)
Biochemistry
, vol.50
, Issue.32
, pp. 7002-7014
-
-
Hein, P.P.1
Palangat, M.2
Landick, R.3
-
11
-
-
3042709472
-
Characterization of a novel RNA polymerase II arrest site which lacks a weak 3′ RNA-DNA hybrid
-
DOI 10.1093/nar/gkh505
-
Hawryluk PJ, Ujvári A, Luse DS (2004) Characterization of a novel RNA polymerase II arrest site which lacks a weak 3′ RNA-DNA hybrid. Nucleic Acids Res 32(6):1904-1916. (Pubitemid 38849349)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.6
, pp. 1904-1916
-
-
Hawryluk, P.J.1
Ujvari, A.2
Luse, D.S.3
-
12
-
-
33744981369
-
Sequence-Resolved Detection of Pausing by Single RNA Polymerase Molecules
-
DOI 10.1016/j.cell.2006.04.032, PII S0092867406005812
-
Herbert KM, et al. (2006) Sequence-resolved detection of pausing by single RNA polymerase molecules. Cell 125(6):1083-1094. (Pubitemid 43866198)
-
(2006)
Cell
, vol.125
, Issue.6
, pp. 1083-1094
-
-
Herbert, K.M.1
La Porta, A.2
Wong, B.J.3
Mooney, R.A.4
Neuman, K.C.5
Landick, R.6
Block, S.M.7
-
13
-
-
84901684210
-
Millisecond dynamics of RNA polymerase II translocation at atomic resolution
-
Silva D-A, et al. (2014) Millisecond dynamics of RNA polymerase II translocation at atomic resolution. Proc Natl Acad Sci USA 111:7665-7670.
-
(2014)
Proc Natl Acad Sci USA
, vol.111
, pp. 7665-7670
-
-
Silva, D.-A.1
-
14
-
-
0033578701
-
Crystal structure of Thermus aquaticus core RNA polymerase at 3.3 A resolution
-
Zhang G, et al. (1999) Crystal structure of Thermus aquaticus core RNA polymerase at 3.3 Å resolution. Cell 98(6):811-824.
-
(1999)
Cell
, vol.98
, Issue.6
, pp. 811-824
-
-
Zhang, G.1
-
15
-
-
0035827332
-
Structural basis of transcription: An RNA polymerase II elongation complex at 3.3 Å resolution
-
DOI 10.1126/science.1059495
-
Gnatt AL, Cramer P, Fu J, Bushnell DA, Kornberg RD (2001) Structural basis of transcription: An RNA polymerase II elongation complex at 3.3 Å resolution. Science 292(5523):1876-1882. (Pubitemid 32538357)
-
(2001)
Science
, vol.292
, Issue.5523
, pp. 1876-1882
-
-
Gnatt, A.L.1
Cramer, P.2
Fu, J.3
Bushnell, D.A.4
Kornberg, R.D.5
-
16
-
-
33751235874
-
Structural basis of transcription: Role of the trigger loop in substrate specificity and catalysis
-
DOI 10.1016/j.cell.2006.11.023, PII S0092867406014796
-
Wang D, Bushnell DA, Westover KD, Kaplan CD, Kornberg RD (2006) Structural basis of transcription: Role of the trigger loop in substrate specificity and catalysis. Cell 127(5):941-954. (Pubitemid 44792264)
-
(2006)
Cell
, vol.127
, Issue.5
, pp. 941-954
-
-
Wang, D.1
Bushnell, D.A.2
Westover, K.D.3
Kaplan, C.D.4
Kornberg, R.D.5
-
17
-
-
12944324227
-
A ratchet mechanism of transcription elongation and its control
-
DOI 10.1016/j.cell.2004.11.045, PII S0092867404011493
-
Bar-Nahum G, et al. (2005) A ratchet mechanism of transcription elongation and its control. Cell 120(2):183-193. (Pubitemid 40174762)
-
(2005)
Cell
, vol.120
, Issue.2
, pp. 183-193
-
-
Bar-Nahum, G.1
Epshtein, V.2
Ruckenstein, A.E.3
Rafikov, R.4
Mustaev, A.5
Nudler, E.6
-
18
-
-
84889008965
-
Nanobiology of RNA polymerase: Biological consequence of inhomogeneity in reactant
-
Shimamoto N (2013) Nanobiology of RNA polymerase: Biological consequence of inhomogeneity in reactant. Chem Rev 113(11):8400-8422.
-
(2013)
Chem Rev
, vol.113
, Issue.11
, pp. 8400-8422
-
-
Shimamoto, N.1
-
19
-
-
0030454007
-
Mutagenesis of a stacking contact in the MS2 coat protein-RNA complex
-
LeCuyer KA, Behlen LS, Uhlenbeck OC (1996) Mutagenesis of a stacking contact in the MS2 coat protein-RNA complex. EMBO J 15(24):6847-6853. (Pubitemid 27023255)
-
(1996)
EMBO Journal
, vol.15
, Issue.24
, pp. 6847-6853
-
-
LeCuyer, K.A.1
Behlen, L.S.2
Uhlenbeck, O.C.3
-
20
-
-
0030018338
-
Contribution of the tyrosines to the structure and function of the human U1A N-terminal RNA binding domain
-
Kranz JK, Lu J, Hall KB (1996) Contribution of the tyrosines to the structure and function of the human U1A N-terminal RNA binding domain. Protein Sci 5(8):1567-1583. (Pubitemid 26257221)
-
(1996)
Protein Science
, vol.5
, Issue.8
, pp. 1567-1583
-
-
Kranz, J.K.1
Lu, J.2
Hall, K.B.3
-
21
-
-
84868144458
-
Probing sequence-specific DNA flexibility in a-tracts and pyrimidine-purine steps by nuclear magnetic resonance (13)C relaxation and molecular dynamics simulations
-
Nikolova EN, Bascom GD, Andricioaei I, Al-Hashimi HM (2012) Probing sequence-specific DNA flexibility in a-tracts and pyrimidine-purine steps by nuclear magnetic resonance (13)C relaxation and molecular dynamics simulations. Biochemistry 51(43):8654-8664.
-
(2012)
Biochemistry
, vol.51
, Issue.43
, pp. 8654-8664
-
-
Nikolova, E.N.1
Bascom, G.D.2
Andricioaei, I.3
Al-Hashimi, H.M.4
-
22
-
-
67049100283
-
Mechanism of sequence-specific pausing of bacterial RNA polymerase
-
Kireeva ML, Kashlev M (2009) Mechanism of sequence-specific pausing of bacterial RNA polymerase. Proc Natl Acad Sci USA 106(22):8900-8905.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, Issue.22
, pp. 8900-8905
-
-
Kireeva, M.L.1
Kashlev, M.2
-
23
-
-
84863069608
-
Dynamics of pyrophosphate ion release and its coupled trigger loop motion from closed to open state in RNA polymerase II
-
Da LT, Wang D, Huang X (2012) Dynamics of pyrophosphate ion release and its coupled trigger loop motion from closed to open state in RNA polymerase II. J Am Chem Soc 134(4):2399-2406.
-
(2012)
J Am Chem Soc
, vol.134
, Issue.4
, pp. 2399-2406
-
-
Da, L.T.1
Wang, D.2
Huang, X.3
-
24
-
-
84867297989
-
Active site opening and closure control translocation of multisubunit RNA polymerase
-
Malinen AM, et al. (2012) Active site opening and closure control translocation of multisubunit RNA polymerase. Nucleic Acids Res 40(15):7442-7451.
-
(2012)
Nucleic Acids Res
, vol.40
, Issue.15
, pp. 7442-7451
-
-
Malinen, A.M.1
-
25
-
-
77953082083
-
E coli NusG inhibits backtracking and accelerates pause-free transcription by promoting forward translocation of RNA polymerase
-
Herbert KM, et al. (2010) E. coli NusG inhibits backtracking and accelerates pause-free transcription by promoting forward translocation of RNA polymerase. J Mol Biol 399(1):17-30.
-
(2010)
J Mol Biol
, vol.399
, Issue.1
, pp. 17-30
-
-
Herbert, K.M.1
-
26
-
-
84884682805
-
Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism
-
Dangkulwanich M, et al. (2013) Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism. Elife 2:e00971.
-
(2013)
Elife
, vol.2
-
-
Dangkulwanich, M.1
-
27
-
-
78049347876
-
RNA polymerase II with open and closed trigger loops: Active site dynamics and nucleic acid translocation
-
Feig M, Burton ZF (2010) RNA polymerase II with open and closed trigger loops: Active site dynamics and nucleic acid translocation. Biophys J 99(8):2577-2586.
-
(2010)
Biophys J
, vol.99
, Issue.8
, pp. 2577-2586
-
-
Feig, M.1
Burton, Z.F.2
|