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Exploring the molecular basis of dsRNA recognition by Mss116p using molecular dynamics simulations and free-energy calculations.

Xue Q, Zhang JL, Zheng QC, Cui YL, Chen L, Chu WT, Zhang HX.

Langmuir. 2013 Sep 3;29(35):11135-44. doi: 10.1021/la402354r. Epub 2013 Aug 22.


Structural basis for RNA-duplex recognition and unwinding by the DEAD-box helicase Mss116p.

Mallam AL, Del Campo M, Gilman B, Sidote DJ, Lambowitz AM.

Nature. 2012 Oct 4;490(7418):121-5. doi: 10.1038/nature11402. Epub 2012 Sep 2.


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.


Exploring the molecular basis of dsRNA recognition by NS1 protein of influenza A virus using molecular dynamics simulation and free energy calculation.

Pan D, Sun H, Shen Y, Liu H, Yao X.

Antiviral Res. 2011 Dec;92(3):424-33. doi: 10.1016/j.antiviral.2011.09.009. Epub 2011 Oct 4.


High-throughput genetic identification of functionally important regions of the yeast DEAD-box protein Mss116p.

Mohr G, Del Campo M, Turner KG, Gilman B, Wolf RZ, Lambowitz AM.

J Mol Biol. 2011 Nov 11;413(5):952-72. doi: 10.1016/j.jmb.2011.09.015. Epub 2011 Sep 16.


Solution structures of DEAD-box RNA chaperones reveal conformational changes and nucleic acid tethering by a basic tail.

Mallam AL, Jarmoskaite I, Tijerina P, Del Campo M, Seifert S, Guo L, Russell R, Lambowitz AM.

Proc Natl Acad Sci U S A. 2011 Jul 26;108(30):12254-9. doi: 10.1073/pnas.1109566108. Epub 2011 Jul 11.


Motif III in superfamily 2 "helicases" helps convert the binding energy of ATP into a high-affinity RNA binding site in the yeast DEAD-box protein Ded1.

Banroques J, Doère M, Dreyfus M, Linder P, Tanner NK.

J Mol Biol. 2010 Mar 5;396(4):949-66. doi: 10.1016/j.jmb.2009.12.025. Epub 2009 Dec 21.


Structural basis of RNA recognition and activation by innate immune receptor RIG-I.

Jiang F, Ramanathan A, Miller MT, Tang GQ, Gale M Jr, Patel SS, Marcotrigiano J.

Nature. 2011 Sep 25;479(7373):423-7. doi: 10.1038/nature10537.


Structure-guided mutational analysis of a yeast DEAD-box protein involved in mitochondrial RNA splicing.

Bifano AL, Turk EM, Caprara MG.

J Mol Biol. 2010 May 7;398(3):429-43. doi: 10.1016/j.jmb.2010.03.025. Epub 2010 Mar 20.


Exploring the mechanism how Marburg virus VP35 recognizes and binds dsRNA by molecular dynamics simulations and free energy calculations.

Xue Q, Zheng QC, Zhang JL, Cui YL, Zhang HX.

Biopolymers. 2014 Aug;101(8):849-60. doi: 10.1002/bip.22463.


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.


Structure of the Yeast DEAD box protein Mss116p reveals two wedges that crimp RNA.

Del Campo M, Lambowitz AM.

Mol Cell. 2009 Sep 11;35(5):598-609. doi: 10.1016/j.molcel.2009.07.032.


Molecular dynamics simulation of the allosteric regulation of eIF4A protein from the open to closed state, induced by ATP and RNA substrates.

Meng H, Li C, Wang Y, Chen G.

PLoS One. 2014 Jan 23;9(1):e86104. doi: 10.1371/journal.pone.0086104. eCollection 2014.


DEAD-box proteins unwind duplexes by local strand separation.

Yang Q, Del Campo M, Lambowitz AM, Jankowsky E.

Mol Cell. 2007 Oct 26;28(2):253-63.


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.


Crystal structure of RIG-I C-terminal domain bound to blunt-ended double-strand RNA without 5' triphosphate.

Lu C, Ranjith-Kumar CT, Hao L, Kao CC, Li P.

Nucleic Acids Res. 2011 Mar;39(4):1565-75. doi: 10.1093/nar/gkq974. Epub 2010 Oct 20.


ATP-dependent roles of the DEAD-box protein Mss116p in group II intron splicing in vitro and in vivo.

Potratz JP, Del Campo M, Wolf RZ, Lambowitz AM, Russell R.

J Mol Biol. 2011 Aug 19;411(3):661-79. doi: 10.1016/j.jmb.2011.05.047. Epub 2011 Jun 7.


DEAD-box proteins can completely separate an RNA duplex using a single ATP.

Chen Y, Potratz JP, Tijerina P, Del Campo M, Lambowitz AM, Russell R.

Proc Natl Acad Sci U S A. 2008 Dec 23;105(51):20203-8. doi: 10.1073/pnas.0811075106. Epub 2008 Dec 16.


The mechanism of ATP-dependent RNA unwinding by DEAD box proteins.

Hilbert M, Karow AR, Klostermeier D.

Biol Chem. 2009 Dec;390(12):1237-50. doi: 10.1515/BC.2009.135. Review.

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