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A Comparative Study of Small Molecules Targeting eIF4A.

Naineni SK, Itoua Maiga R, Cencic R, Putnam AA, Amador LA, Rodriguez AD, Jankowsky E, Pelletier J.

RNA. 2020 Feb 3. pii: rna.072884.119. doi: 10.1261/rna.072884.119. [Epub ahead of print]


Substrate selectivity by the exonuclease Rrp6p.

Axhemi A, Wasmuth EV, Lima CD, Jankowsky E.

Proc Natl Acad Sci U S A. 2020 Jan 14;117(2):982-992. doi: 10.1073/pnas.1913236117. Epub 2019 Dec 26.


High throughput approaches to study RNA-protein interactions in vitro.

Ye X, Jankowsky E.

Methods. 2019 Sep 5. pii: S1046-2023(19)30088-X. doi: 10.1016/j.ymeth.2019.09.006. [Epub ahead of print] Review.


Approaches for measuring the dynamics of RNA-protein interactions.

Licatalosi DD, Ye X, Jankowsky E.

Wiley Interdiscip Rev RNA. 2020 Jan;11(1):e1565. doi: 10.1002/wrna.1565. Epub 2019 Aug 20. Review.


DEAD-box RNA helicases Dbp2, Ded1 and Mss116 bind to G-quadruplex nucleic acids and destabilize G-quadruplex RNA.

Gao J, Byrd AK, Zybailov BL, Marecki JC, Guderyon MJ, Edwards AD, Chib S, West KL, Waldrip ZJ, Mackintosh SG, Gao Z, Putnam AA, Jankowsky E, Raney KD.

Chem Commun (Camb). 2019 Apr 11;55(31):4467-4470. doi: 10.1039/c8cc10091h.


A helicase links upstream ORFs and RNA structure.

Jankowsky E, Guenther UP.

Curr Genet. 2019 Apr;65(2):453-456. doi: 10.1007/s00294-018-0911-z. Epub 2018 Nov 27. Review.


Small-molecule AgrA inhibitors F12 and F19 act as antivirulence agents against Gram-positive pathogens.

Greenberg M, Kuo D, Jankowsky E, Long L, Hager C, Bandi K, Ma D, Manoharan D, Shoham Y, Harte W, Ghannoum MA, Shoham M.

Sci Rep. 2018 Oct 1;8(1):14578. doi: 10.1038/s41598-018-32829-w.


The DEAD-box protein Dbp2p is linked to noncoding RNAs, the helicase Sen1p, and R-loops.

Tedeschi FA, Cloutier SC, Tran EJ, Jankowsky E.

RNA. 2018 Dec;24(12):1693-1705. doi: 10.1261/rna.067249.118. Epub 2018 Sep 27.


The helicase Ded1p controls use of near-cognate translation initiation codons in 5' UTRs.

Guenther UP, Weinberg DE, Zubradt MM, Tedeschi FA, Stawicki BN, Zagore LL, Brar GA, Licatalosi DD, Bartel DP, Weissman JS, Jankowsky E.

Nature. 2018 Jul;559(7712):130-134. doi: 10.1038/s41586-018-0258-0. Epub 2018 Jun 27.


Biochemical Differences and Similarities between the DEAD-Box Helicase Orthologs DDX3X and Ded1p.

Sharma D, Putnam AA, Jankowsky E.

J Mol Biol. 2017 Nov 24;429(23):3730-3742. doi: 10.1016/j.jmb.2017.10.008. Epub 2017 Oct 13.


The contribution of the C5 protein subunit of Escherichia coli ribonuclease P to specificity for precursor tRNA is modulated by proximal 5' leader sequences.

Niland CN, Anderson DR, Jankowsky E, Harris ME.

RNA. 2017 Oct;23(10):1502-1511. doi: 10.1261/rna.056408.116. Epub 2017 Jul 10.


Mapping specificity landscapes of RNA-protein interactions by high throughput sequencing.

Jankowsky E, Harris ME.

Methods. 2017 Apr 15;118-119:111-118. doi: 10.1016/j.ymeth.2017.03.002. Epub 2017 Mar 2.


The RNA helicase Mtr4p is a duplex-sensing translocase.

Patrick EM, Srinivasan S, Jankowsky E, Comstock MJ.

Nat Chem Biol. 2017 Jan;13(1):99-104. doi: 10.1038/nchembio.2234. Epub 2016 Nov 21.


Analysis of the RNA Binding Specificity Landscape of C5 Protein Reveals Structure and Sequence Preferences that Direct RNase P Specificity.

Lin HC, Zhao J, Niland CN, Tran B, Jankowsky E, Harris ME.

Cell Chem Biol. 2016 Oct 20;23(10):1271-1281. doi: 10.1016/j.chembiol.2016.09.002. Epub 2016 Sep 29.


Coupling between the DEAD-box RNA helicases Ded1p and eIF4A.

Gao Z, Putnam AA, Bowers HA, Guenther UP, Ye X, Kindsfather A, Hilliker AK, Jankowsky E.

Elife. 2016 Aug 5;5. pii: e16408. doi: 10.7554/eLife.16408.


Determination of the Specificity Landscape for Ribonuclease P Processing of Precursor tRNA 5' Leader Sequences.

Niland CN, Zhao J, Lin HC, Anderson DR, Jankowsky E, Harris ME.

ACS Chem Biol. 2016 Aug 19;11(8):2285-92. doi: 10.1021/acschembio.6b00275. Epub 2016 Jun 23.


Optimization of high-throughput sequencing kinetics for determining enzymatic rate constants of thousands of RNA substrates.

Niland CN, Jankowsky E, Harris ME.

Anal Biochem. 2016 Oct 1;510:1-10. doi: 10.1016/j.ab.2016.06.004. Epub 2016 Jun 11.


Autoinhibitory Interdomain Interactions and Subfamily-specific Extensions Redefine the Catalytic Core of the Human DEAD-box Protein DDX3.

Floor SN, Condon KJ, Sharma D, Jankowsky E, Doudna JA.

J Biol Chem. 2016 Jan 29;291(5):2412-21. doi: 10.1074/jbc.M115.700625. Epub 2015 Nov 23.


Specificity and nonspecificity in RNA-protein interactions.

Jankowsky E, Harris ME.

Nat Rev Mol Cell Biol. 2015 Sep;16(9):533-44. doi: 10.1038/nrm4032. Epub 2015 Aug 19. Review.


Division of Labor in an Oligomer of the DEAD-Box RNA Helicase Ded1p.

Putnam AA, Gao Z, Liu F, Jia H, Yang Q, Jankowsky E.

Mol Cell. 2015 Aug 20;59(4):541-52. doi: 10.1016/j.molcel.2015.06.030. Epub 2015 Jul 23.


Inherited and Somatic Defects in DDX41 in Myeloid Neoplasms.

Polprasert C, Schulze I, Sekeres MA, Makishima H, Przychodzen B, Hosono N, Singh J, Padgett RA, Gu X, Phillips JG, Clemente M, Parker Y, Lindner D, Dienes B, Jankowsky E, Saunthararajah Y, Du Y, Oakley K, Nguyen N, Mukherjee S, Pabst C, Godley LA, Churpek JE, Pollyea DA, Krug U, Berdel WE, Klein HU, Dugas M, Shiraishi Y, Chiba K, Tanaka H, Miyano S, Yoshida K, Ogawa S, Müller-Tidow C, Maciejewski JP.

Cancer Cell. 2015 May 11;27(5):658-70. doi: 10.1016/j.ccell.2015.03.017. Epub 2015 Apr 23.


From exotic to exciting.

Jankowsky E.

RNA. 2015 Apr;21(4):655-6. doi: 10.1261/rna.051045.115. No abstract available.


The Ded1/DDX3 subfamily of DEAD-box RNA helicases.

Sharma D, Jankowsky E.

Crit Rev Biochem Mol Biol. 2014 Jul-Aug;49(4):343-60. doi: 10.3109/10409238.2014.931339. Review.


Angiogenin-cleaved tRNA halves interact with cytochrome c, protecting cells from apoptosis during osmotic stress.

Saikia M, Jobava R, Parisien M, Putnam A, Krokowski D, Gao XH, Guan BJ, Yuan Y, Jankowsky E, Feng Z, Hu GF, Pusztai-Carey M, Gorla M, Sepuri NB, Pan T, Hatzoglou M.

Mol Cell Biol. 2014 Jul;34(13):2450-63. doi: 10.1128/MCB.00136-14. Epub 2014 Apr 21.


DEAD-box helicases form nucleotide-dependent, long-lived complexes with RNA.

Liu F, Putnam AA, Jankowsky E.

Biochemistry. 2014 Jan 21;53(2):423-33. doi: 10.1021/bi401540q. Epub 2014 Jan 7.


Hidden specificity in an apparently nonspecific RNA-binding protein.

Guenther UP, Yandek LE, Niland CN, Campbell FE, Anderson D, Anderson VE, Harris ME, Jankowsky E.

Nature. 2013 Oct 17;502(7471):385-8. doi: 10.1038/nature12543. Epub 2013 Sep 22.


Mutational analysis of the yeast RNA helicase Sub2p reveals conserved domains required for growth, mRNA export, and genomic stability.

Saguez C, Gonzales FA, Schmid M, Bøggild A, Latrick CM, Malagon F, Putnam A, Sanderson L, Jankowsky E, Brodersen DE, Jensen TH.

RNA. 2013 Oct;19(10):1363-71. doi: 10.1261/rna.040048.113. Epub 2013 Aug 20.


An Arabidopsis ATP-dependent, DEAD-box RNA helicase loses activity upon IsoAsp formation but is restored by PROTEIN ISOASPARTYL METHYLTRANSFERASE.

Nayak NR, Putnam AA, Addepalli B, Lowenson JD, Chen T, Jankowsky E, Perry SE, Dinkins RD, Limbach PA, Clarke SG, Downie AB.

Plant Cell. 2013 Jul;25(7):2573-86. doi: 10.1105/tpc.113.113456. Epub 2013 Jul 31.


AMP sensing by DEAD-box RNA helicases.

Putnam AA, Jankowsky E.

J Mol Biol. 2013 Oct 23;425(20):3839-45. doi: 10.1016/j.jmb.2013.05.006. Epub 2013 May 20.


Discovery of antivirulence agents against methicillin-resistant Staphylococcus aureus.

Khodaverdian V, Pesho M, Truitt B, Bollinger L, Patel P, Nithianantham S, Yu G, Delaney E, Jankowsky E, Shoham M.

Antimicrob Agents Chemother. 2013 Aug;57(8):3645-52. doi: 10.1128/AAC.00269-13. Epub 2013 May 20.


DEAD-box helicases as integrators of RNA, nucleotide and protein binding.

Putnam AA, Jankowsky E.

Biochim Biophys Acta. 2013 Aug;1829(8):884-93. doi: 10.1016/j.bbagrm.2013.02.002. Epub 2013 Feb 15. Review.


Methods in enzymology. Preface.

Jankowsky E.

Methods Enzymol. 2012;511:xix-xx. doi: 10.1016/B978-0-12-396546-2.00029-2. No abstract available.


Analysis of duplex unwinding by RNA helicases using stopped-flow fluorescence spectroscopy.

Putnam A, Jankowsky E.

Methods Enzymol. 2012;511:1-27. doi: 10.1016/B978-0-12-396546-2.00001-2.


RNA unwinding by the Trf4/Air2/Mtr4 polyadenylation (TRAMP) complex.

Jia H, Wang X, Anderson JT, Jankowsky E.

Proc Natl Acad Sci U S A. 2012 May 8;109(19):7292-7. doi: 10.1073/pnas.1201085109. Epub 2012 Apr 24.


Unwinding initiation by the viral RNA helicase NPH-II.

Fairman-Williams ME, Jankowsky E.

J Mol Biol. 2012 Feb 3;415(5):819-32. doi: 10.1016/j.jmb.2011.11.045. Epub 2011 Dec 6.


The DEAD-box protein Ded1 modulates translation by the formation and resolution of an eIF4F-mRNA complex.

Hilliker A, Gao Z, Jankowsky E, Parker R.

Mol Cell. 2011 Sep 16;43(6):962-72. doi: 10.1016/j.molcel.2011.08.008.


From unwinding to clamping - the DEAD box RNA helicase family.

Linder P, Jankowsky E.

Nat Rev Mol Cell Biol. 2011 Jul 22;12(8):505-16. doi: 10.1038/nrm3154. Review.


The RNA helicase Mtr4p modulates polyadenylation in the TRAMP complex.

Jia H, Wang X, Liu F, Guenther UP, Srinivasan S, Anderson JT, Jankowsky E.

Cell. 2011 Jun 10;145(6):890-901. doi: 10.1016/j.cell.2011.05.010.


The RNA helicase database.

Jankowsky A, Guenther UP, Jankowsky E.

Nucleic Acids Res. 2011 Jan;39(Database issue):D338-41. doi: 10.1093/nar/gkq1002. Epub 2010 Nov 25.


RNA helicases at work: binding and rearranging.

Jankowsky E.

Trends Biochem Sci. 2011 Jan;36(1):19-29. doi: 10.1016/j.tibs.2010.07.008. Review.


SF1 and SF2 helicases: family matters.

Fairman-Williams ME, Guenther UP, Jankowsky E.

Curr Opin Struct Biol. 2010 Jun;20(3):313-24. doi: 10.1016/ Epub 2010 Apr 22. Review.


Duplex unwinding with DEAD-box proteins.

Jankowsky E, Putnam A.

Methods Mol Biol. 2010;587:245-64. doi: 10.1007/978-1-60327-355-8_18.


Helicase multitasking in ribosome assembly.

Guenther UP, Jankowsky E.

Mol Cell. 2009 Nov 25;36(4):537-8. doi: 10.1016/j.molcel.2009.11.004.


Intrinsic RNA binding by the eukaryotic initiation factor 4F depends on a minimal RNA length but not on the m7G cap.

Kaye NM, Emmett KJ, Merrick WC, Jankowsky E.

J Biol Chem. 2009 Jun 26;284(26):17742-50. doi: 10.1074/jbc.M109.009001. Epub 2009 May 4.


Unwinding by local strand separation is critical for the function of DEAD-box proteins as RNA chaperones.

Del Campo M, Mohr S, Jiang Y, Jia H, Jankowsky E, Lambowitz AM.

J Mol Biol. 2009 Jun 19;389(4):674-93. doi: 10.1016/j.jmb.2009.04.043. Epub 2009 Apr 23.


Dynamic regulation of alternative splicing by silencers that modulate 5' splice site competition.

Yu Y, Maroney PA, Denker JA, Zhang XH, Dybkov O, Lührmann R, Jankowsky E, Chasin LA, Nilsen TW.

Cell. 2008 Dec 26;135(7):1224-36. doi: 10.1016/j.cell.2008.10.046.


ATP hydrolysis is required for DEAD-box protein recycling but not for duplex unwinding.

Liu F, Putnam A, Jankowsky E.

Proc Natl Acad Sci U S A. 2008 Dec 23;105(51):20209-14. doi: 10.1073/pnas.0811115106. Epub 2008 Dec 16.


Duplex unwinding and RNP remodeling with RNA helicases.

Jankowsky E, Fairman ME.

Methods Mol Biol. 2008;488:343-55. doi: 10.1007/978-1-60327-475-3_22.


RNA unwinding activity of the hepatitis C virus NS3 helicase is modulated by the NS5B polymerase.

Jennings TA, Chen Y, Sikora D, Harrison MK, Sikora B, Huang L, Jankowsky E, Fairman ME, Cameron CE, Raney KD.

Biochemistry. 2008 Jan 29;47(4):1126-35. doi: 10.1021/bi701048a. Epub 2008 Jan 8.


Function of the C-terminal domain of the DEAD-box protein Mss116p analyzed in vivo and in vitro.

Mohr G, Del Campo M, Mohr S, Yang Q, Jia H, Jankowsky E, Lambowitz AM.

J Mol Biol. 2008 Feb 1;375(5):1344-64. Epub 2007 Nov 22.

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