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Results: 1 to 20 of 88

1.

Allosteric Activation of Bacterial Swi2/Snf2 Protein RapA by RNA Polymerase: Biochemical and Structural Studies.

Kakar S, Fang X, Lubkowska L, Zhou YN, Shaw GX, Wang YX, Jin DJ, Kashlev M, Ji X.

J Biol Chem. 2015 Aug 13. pii: jbc.M114.618801. [Epub ahead of print]

2.

Visualizing translocation dynamics and nascent transcript errors in paused RNA polymerases in vivo.

Imashimizu M, Takahashi H, Oshima T, McIntosh C, Bubunenko M, Court DL, Kashlev M.

Genome Biol. 2015 May 15;16:98. doi: 10.1186/s13059-015-0666-5.

3.

Productive mRNA stem loop-mediated transcriptional slippage: Crucial features in common with intrinsic terminators.

Penno C, Sharma V, Coakley A, O'Connell Motherway M, van Sinderen D, Lubkowska L, Kireeva ML, Kashlev M, Baranov PV, Atkins JF.

Proc Natl Acad Sci U S A. 2015 Apr 21;112(16):E1984-93. doi: 10.1073/pnas.1418384112. Epub 2015 Apr 6.

4.

Mechanism of RNA polymerase II bypass of oxidative cyclopurine DNA lesions.

Walmacq C, Wang L, Chong J, Scibelli K, Lubkowska L, Gnatt A, Brooks PJ, Wang D, Kashlev M.

Proc Natl Acad Sci U S A. 2015 Feb 3;112(5):E410-9. doi: 10.1073/pnas.1415186112. Epub 2015 Jan 20.

5.

A genetic assay for transcription errors reveals multilayer control of RNA polymerase II fidelity.

Irvin JD, Kireeva ML, Gotte DR, Shafer BK, Huang I, Kashlev M, Strathern JN.

PLoS Genet. 2014 Sep 18;10(9):e1004532. doi: 10.1371/journal.pgen.1004532. eCollection 2014 Sep.

6.

Coliphage HK022 Nun protein inhibits RNA polymerase translocation.

Vitiello CL, Kireeva ML, Lubkowska L, Kashlev M, Gottesman M.

Proc Natl Acad Sci U S A. 2014 Jun 10;111(23):E2368-75. doi: 10.1073/pnas.1319740111. Epub 2014 May 22.

7.

Unveiling translocation intermediates of RNA polymerase.

Imashimizu M, Kashlev M.

Proc Natl Acad Sci U S A. 2014 May 27;111(21):7507-8. doi: 10.1073/pnas.1406413111. Epub 2014 May 14. No abstract available.

8.

In silico design and enzymatic synthesis of functional RNA nanoparticles.

Afonin KA, Kasprzak WK, Bindewald E, Kireeva M, Viard M, Kashlev M, Shapiro BA.

Acc Chem Res. 2014 Jun 17;47(6):1731-41. doi: 10.1021/ar400329z. Epub 2014 Apr 23.

9.

Bacteriophage λ N protein inhibits transcription slippage by Escherichia coli RNA polymerase.

Parks AR, Court C, Lubkowska L, Jin DJ, Kashlev M, Court DL.

Nucleic Acids Res. 2014 May;42(9):5823-9. doi: 10.1093/nar/gku203. Epub 2014 Apr 7.

10.

Transcription elongation: Heterogeneous tracking of RNA polymerase and its biological implications.

Imashimizu M, Shimamoto N, Oshima T, Kashlev M.

Transcription. 2014 Feb 21;5. [Epub ahead of print] Review.

PMID:
24642570
11.

Transcription factors IIS and IIF enhance transcription efficiency by differentially modifying RNA polymerase pausing dynamics.

Ishibashi T, Dangkulwanich M, Coello Y, Lionberger TA, Lubkowska L, Ponticelli AS, Kashlev M, Bustamante C.

Proc Natl Acad Sci U S A. 2014 Mar 4;111(9):3419-24. doi: 10.1073/pnas.1401611111. Epub 2014 Feb 18.

12.

Transcription elongation. Heterogeneous tracking of RNA polymerase and its biological implications.

Imashimizu M, Shimamoto N, Oshima T, Kashlev M.

Transcription. 2014;5(1):e28285. doi: 10.4161/trns.28285.

PMID:
25764114
13.

RNA polymerase structure, function, regulation, dynamics, fidelity, and roles in gene expression.

Kireeva ML, Kashlev M, Burton ZF.

Chem Rev. 2013 Nov 13;113(11):8325-30. doi: 10.1021/cr400436m. No abstract available.

14.

Co-transcriptional production of RNA-DNA hybrids for simultaneous release of multiple split functionalities.

Afonin KA, Desai R, Viard M, Kireeva ML, Bindewald E, Case CL, Maciag AE, Kasprzak WK, Kim T, Sappe A, Stepler M, Kewalramani VN, Kashlev M, Blumenthal R, Shapiro BA.

Nucleic Acids Res. 2014 Feb;42(3):2085-97. doi: 10.1093/nar/gkt1001. Epub 2013 Nov 4.

15.

Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism.

Dangkulwanich M, Ishibashi T, Liu S, Kireeva ML, Lubkowska L, Kashlev M, Bustamante CJ.

Elife. 2013 Sep 24;2:e00971. doi: 10.7554/eLife.00971.

16.

Direct assessment of transcription fidelity by high-resolution RNA sequencing.

Imashimizu M, Oshima T, Lubkowska L, Kashlev M.

Nucleic Acids Res. 2013 Oct;41(19):9090-104. doi: 10.1093/nar/gkt698. Epub 2013 Aug 7.

17.

Intrinsic translocation barrier as an initial step in pausing by RNA polymerase II.

Imashimizu M, Kireeva ML, Lubkowska L, Gotte D, Parks AR, Strathern JN, Kashlev M.

J Mol Biol. 2013 Feb 22;425(4):697-712. doi: 10.1016/j.jmb.2012.12.002. Epub 2012 Dec 10.

PMID:
23238253
18.

Isolation and characterization of RNA polymerase rpoB mutations that alter transcription slippage during elongation in Escherichia coli.

Zhou YN, Lubkowska L, Hui M, Court C, Chen S, Court DL, Strathern J, Jin DJ, Kashlev M.

J Biol Chem. 2013 Jan 25;288(4):2700-10. doi: 10.1074/jbc.M112.429464. Epub 2012 Dec 5.

19.

The fidelity of transcription: RPB1 (RPO21) mutations that increase transcriptional slippage in S. cerevisiae.

Strathern J, Malagon F, Irvin J, Gotte D, Shafer B, Kireeva M, Lubkowska L, Jin DJ, Kashlev M.

J Biol Chem. 2013 Jan 25;288(4):2689-99. doi: 10.1074/jbc.M112.429506. Epub 2012 Dec 5.

20.

The RNA polymerase bridge helix YFI motif in catalysis, fidelity and translocation.

Nedialkov YA, Opron K, Assaf F, Artsimovitch I, Kireeva ML, Kashlev M, Cukier RI, Nudler E, Burton ZF.

Biochim Biophys Acta. 2013 Feb;1829(2):187-98. doi: 10.1016/j.bbagrm.2012.11.005. Epub 2012 Nov 30.

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