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Items: 1 to 20 of 101

1.

Novel ligands for a purine riboswitch discovered by RNA-ligand docking.

Daldrop P, Reyes FE, Robinson DA, Hammond CM, Lilley DM, Batey RT, Brenk R.

Chem Biol. 2011 Mar 25;18(3):324-35. doi: 10.1016/j.chembiol.2010.12.020.

2.

Binding site preorganization and ligand discrimination in the purine riboswitch.

Sund J, Lind C, Åqvist J.

J Phys Chem B. 2015 Jan 22;119(3):773-82. doi: 10.1021/jp5052358. Epub 2014 Jul 18.

PMID:
25014157
3.

Probing riboswitch binding sites with molecular docking, focused libraries, and in-line probing assays.

Colizzi F, Lamontagne AM, Lafontaine DA, Bussi G.

Methods Mol Biol. 2014;1103:141-51. doi: 10.1007/978-1-62703-730-3_11.

PMID:
24318892
4.

Riboswitch structures: purine ligands replace tertiary contacts.

Lescoute A, Westhof E.

Chem Biol. 2005 Jan;12(1):10-3. Review. No abstract available.

5.

Riboswitch structure in the ligand-free state.

Liberman JA, Wedekind JE.

Wiley Interdiscip Rev RNA. 2012 May-Jun;3(3):369-84. doi: 10.1002/wrna.114. Epub 2011 Sep 28. Review.

6.

Mutational analysis of the purine riboswitch aptamer domain.

Gilbert SD, Love CE, Edwards AL, Batey RT.

Biochemistry. 2007 Nov 20;46(46):13297-309. Epub 2007 Oct 26.

7.

Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain.

Gilbert SD, Stoddard CD, Wise SJ, Batey RT.

J Mol Biol. 2006 Jun 9;359(3):754-68. Epub 2006 Apr 21. Erratum in: J Mol Biol. 2006 Oct 20;363(2):624.

PMID:
16650860
8.

Adaptive ligand binding by the purine riboswitch in the recognition of guanine and adenine analogs.

Gilbert SD, Reyes FE, Edwards AL, Batey RT.

Structure. 2009 Jun 10;17(6):857-68. doi: 10.1016/j.str.2009.04.009.

9.

An intermolecular base triple as the basis of ligand specificity and affinity in the guanine- and adenine-sensing riboswitch RNAs.

Noeske J, Richter C, Grundl MA, Nasiri HR, Schwalbe H, Wöhnert J.

Proc Natl Acad Sci U S A. 2005 Feb 1;102(5):1372-7. Epub 2005 Jan 21.

10.

Theoretical studies on the interaction of modified pyrimidines and purines with purine riboswitch.

Ling B, Wang Z, Zhang R, Meng X, Liu Y, Zhang C, Liu C.

J Mol Graph Model. 2009 Aug;28(1):37-45. doi: 10.1016/j.jmgm.2009.03.005. Epub 2009 Mar 31.

PMID:
19380244
11.

Molecular adaptation in RNA complexes.

Fritsch V, Westhof E.

Structure. 2009 Jun 10;17(6):784-6. doi: 10.1016/j.str.2009.05.005.

12.

Purine sensing by riboswitches.

Kim JN, Breaker RR.

Biol Cell. 2008 Jan;100(1):1-11. Review.

PMID:
18072940
13.

A structural basis for the recognition of 2'-deoxyguanosine by the purine riboswitch.

Edwards AL, Batey RT.

J Mol Biol. 2009 Jan 23;385(3):938-48. doi: 10.1016/j.jmb.2008.10.074. Epub 2008 Nov 5.

14.

Ligand recognition and helical stacking formation are intimately linked in the SAM-I riboswitch regulatory mechanism.

Dussault AM, Dubé A, Jacques F, Grondin JP, Lafontaine DA.

RNA. 2017 Oct;23(10):1539-1551. doi: 10.1261/rna.061796.117. Epub 2017 Jul 12.

15.

DrugScoreRNA--knowledge-based scoring function to predict RNA-ligand interactions.

Pfeffer P, Gohlke H.

J Chem Inf Model. 2007 Sep-Oct;47(5):1868-76. Epub 2007 Aug 18.

PMID:
17705464
16.

Modified pyrimidines specifically bind the purine riboswitch.

Gilbert SD, Mediatore SJ, Batey RT.

J Am Chem Soc. 2006 Nov 8;128(44):14214-5.

PMID:
17076468
17.

Molecular prejudice: RNA discrimination against purines allows response to a cellular alarm.

Ruehle MD, Kieft JS.

Nat Struct Mol Biol. 2015 Oct;22(10):754-6. doi: 10.1038/nsmb.3095. No abstract available.

PMID:
26439636
18.

Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography.

Stagno JR, Liu Y, Bhandari YR, Conrad CE, Panja S, Swain M, Fan L, Nelson G, Li C, Wendel DR, White TA, Coe JD, Wiedorn MO, Knoska J, Oberthuer D, Tuckey RA, Yu P, Dyba M, Tarasov SG, Weierstall U, Grant TD, Schwieters CD, Zhang J, Ferré-D'Amaré AR, Fromme P, Draper DE, Liang M, Hunter MS, Boutet S, Tan K, Zuo X, Ji X, Barty A, Zatsepin NA, Chapman HN, Spence JC, Woodson SA, Wang YX.

Nature. 2017 Jan 12;541(7636):242-246. doi: 10.1038/nature20599. Epub 2016 Nov 14.

19.

Structural basis of cooperative ligand binding by the glycine riboswitch.

Butler EB, Xiong Y, Wang J, Strobel SA.

Chem Biol. 2011 Mar 25;18(3):293-8. doi: 10.1016/j.chembiol.2011.01.013.

20.

Influence of ground-state structure and Mg2+ binding on folding kinetics of the guanine-sensing riboswitch aptamer domain.

Buck J, Wacker A, Warkentin E, Wöhnert J, Wirmer-Bartoschek J, Schwalbe H.

Nucleic Acids Res. 2011 Dec;39(22):9768-78. doi: 10.1093/nar/gkr664. Epub 2011 Sep 2.

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