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Results: 1 to 20 of 101

Similar articles for PubMed (Select 21729350)

1.

A new way to see RNA.

Keating KS, Humphris EL, Pyle AM.

Q Rev Biophys. 2011 Nov;44(4):433-66. doi: 10.1017/S0033583511000059. Epub 2011 May 18.

2.

Evaluating and learning from RNA pseudotorsional space: quantitative validation of a reduced representation for RNA structure.

Wadley LM, Keating KS, Duarte CM, Pyle AM.

J Mol Biol. 2007 Sep 28;372(4):942-57. Epub 2007 Jun 27.

3.

Stepping through an RNA structure: A novel approach to conformational analysis.

Duarte CM, Pyle AM.

J Mol Biol. 1998 Dec 18;284(5):1465-78.

PMID:
9878364
4.

RNA backbone is rotameric.

Murray LJ, Arendall WB 3rd, Richardson DC, Richardson JS.

Proc Natl Acad Sci U S A. 2003 Nov 25;100(24):13904-9. Epub 2003 Nov 11.

5.

Conformational entropy of the RNA phosphate backbone and its contribution to the folding free energy.

Mak CH, Matossian T, Chung WY.

Biophys J. 2014 Apr 1;106(7):1497-507. doi: 10.1016/j.bpj.2014.02.015.

6.

Discrete RNA libraries from pseudo-torsional space.

Humphris-Narayanan E, Pyle AM.

J Mol Biol. 2012 Aug 3;421(1):6-26. doi: 10.1016/j.jmb.2012.03.002. Epub 2012 Mar 13.

7.

Modeling the three-dimensional structure of RNA using discrete nucleotide conformational sets.

Gautheret D, Major F, Cedergren R.

J Mol Biol. 1993 Feb 20;229(4):1049-64.

PMID:
7680379
8.
9.

Geometric properties of nucleic acids with potential for autobuilding.

Gruene T, Sheldrick GM.

Acta Crystallogr A. 2011 Jan;67(Pt 1):1-8. doi: 10.1107/S0108767310039140. Epub 2010 Nov 11.

10.

The influence of the local sequence environment on RNA loop structures.

Schudoma C, Larhlimi A, Walther D.

RNA. 2011 Jul;17(7):1247-57. doi: 10.1261/rna.2550211. Epub 2011 May 31.

11.

RNACluster: An integrated tool for RNA secondary structure comparison and clustering.

Liu Q, Olman V, Liu H, Ye X, Qiu S, Xu Y.

J Comput Chem. 2008 Jul 15;29(9):1517-26. doi: 10.1002/jcc.20911.

PMID:
18271070
12.

RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution).

Richardson JS, Schneider B, Murray LW, Kapral GJ, Immormino RM, Headd JJ, Richardson DC, Ham D, Hershkovits E, Williams LD, Keating KS, Pyle AM, Micallef D, Westbrook J, Berman HM; RNA Ontology Consortium.

RNA. 2008 Mar;14(3):465-81. doi: 10.1261/rna.657708. Epub 2008 Jan 11.

13.

Single nucleotide RNA choreography.

Hsiao C, Mohan S, Hershkovitz E, Tannenbaum A, Williams LD.

Nucleic Acids Res. 2006 Mar 10;34(5):1481-91. Print 2006.

14.

iPARTS: an improved tool of pairwise alignment of RNA tertiary structures.

Wang CW, Chen KT, Lu CL.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W340-7. doi: 10.1093/nar/gkq483. Epub 2010 May 27.

15.

Statistical analysis of RNA backbone.

Hershkovitz E, Sapiro G, Tannenbaum A, Williams LD.

IEEE/ACM Trans Comput Biol Bioinform. 2006 Jan-Mar;3(1):33-46.

16.

RNA conformational sampling. I. Single-nucleotide loop closure.

Mak CH.

J Comput Chem. 2008 Apr 30;29(6):926-33.

PMID:
17966131
17.

Suffix techniques as a rapid method for RNA substructure search.

Bauer RA, Rother K, Bujnicki JM, Preissner R.

Genome Inform. 2008;20:183-98.

18.

RNA backbone rotamers--finding your way in seven dimensions.

Murray LJ, Richardson JS, Arendall WB, Richardson DC.

Biochem Soc Trans. 2005 Jun;33(Pt 3):485-7.

PMID:
15916548
19.

RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures.

Popenda M, Blazewicz M, Szachniuk M, Adamiak RW.

Nucleic Acids Res. 2008 Jan;36(Database issue):D386-91. Epub 2007 Oct 5.

20.

A proteomic Ramachandran plot (PRplot).

Carugo O, Djinović-Carugo K.

Amino Acids. 2013 Feb;44(2):781-90. doi: 10.1007/s00726-012-1402-z. Epub 2012 Sep 25.

PMID:
23007165
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