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Results: 1 to 20 of 139

1.

Geometric nomenclature and classification of RNA base pairs.

Leontis NB, Westhof E.

RNA. 2001 Apr;7(4):499-512.

PMID:
11345429
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

The non-Watson-Crick base pairs and their associated isostericity matrices.

Leontis NB, Stombaugh J, Westhof E.

Nucleic Acids Res. 2002 Aug 15;30(16):3497-531.

PMID:
12177293
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Unique tertiary and neighbor interactions determine conservation patterns of Cis Watson-Crick A/G base-pairs.

Sponer J, Mokdad A, Sponer JE, Spacková N, Leszczynski J, Leontis NB.

J Mol Biol. 2003 Jul 25;330(5):967-78.

PMID:
12860120
[PubMed - indexed for MEDLINE]
4.

Base pairs and pseudo pairs observed in RNA-ligand complexes.

Kondo J, Westhof E.

J Mol Recognit. 2010 Mar-Apr;23(2):241-52. doi: 10.1002/jmr.978.

PMID:
19701919
[PubMed - indexed for MEDLINE]
5.

Theoretical study of the scalar coupling constants across the noncovalent contacts in RNA base pairs: the cis- and trans-watson-crick/sugar edge base pair family.

Vokacova Z, Sponer J, Sponer JE, Sychrovský V.

J Phys Chem B. 2007 Sep 13;111(36):10813-24. Epub 2007 Aug 22.

PMID:
17713941
[PubMed - indexed for MEDLINE]
6.

On the role of the cis Hoogsteen:sugar-edge family of base pairs in platforms and triplets-quantum chemical insights into RNA structural biology.

Sharma P, Sponer JE, Sponer J, Sharma S, Bhattacharyya D, Mitra A.

J Phys Chem B. 2010 Mar 11;114(9):3307-20. doi: 10.1021/jp910226e. Erratum in: J Phys Chem B. 2010 Aug 12;114(31):10234.

PMID:
20163171
[PubMed - indexed for MEDLINE]
7.

RNA canonical and non-canonical base pairing types: a recognition method and complete repertoire.

Lemieux S, Major F.

Nucleic Acids Res. 2002 Oct 1;30(19):4250-63.

PMID:
12364604
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Motif prediction in ribosomal RNAs Lessons and prospects for automated motif prediction in homologous RNA molecules.

Leontis NB, Stombaugh J, Westhof E.

Biochimie. 2002 Sep;84(9):961-73.

PMID:
12458088
[PubMed - indexed for MEDLINE]
9.

Database of non-canonical base pairs found in known RNA structures.

Nagaswamy U, Voss N, Zhang Z, Fox GE.

Nucleic Acids Res. 2000 Jan 1;28(1):375-6.

PMID:
10592279
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Trans Hoogsteen/sugar edge base pairing in RNA. Structures, energies, and stabilities from quantum chemical calculations.

Mládek A, Sharma P, Mitra A, Bhattacharyya D, Sponer J, Sponer JE.

J Phys Chem B. 2009 Feb 12;113(6):1743-55. doi: 10.1021/jp808357m.

PMID:
19152254
[PubMed - indexed for MEDLINE]
11.

Quantum chemical studies of structures and binding in noncanonical RNA base pairs: the trans Watson-Crick:Watson-Crick family.

Sharma P, Mitra A, Sharma S, Singh H, Bhattacharyya D.

J Biomol Struct Dyn. 2008 Jun;25(6):709-32.

PMID:
18399704
[PubMed - indexed for MEDLINE]
12.

The 5S rRNA loop E: chemical probing and phylogenetic data versus crystal structure.

Leontis NB, Westhof E.

RNA. 1998 Sep;4(9):1134-53.

PMID:
9740131
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Recognition of nucleic acid bases and base-pairs by hydrogen bonding to amino acid side-chains.

Cheng AC, Chen WW, Fuhrmann CN, Frankel AD.

J Mol Biol. 2003 Apr 4;327(4):781-96.

PMID:
12654263
[PubMed - indexed for MEDLINE]
14.

Non-Watson-Crick base pairing in RNA. quantum chemical analysis of the cis Watson-Crick/sugar edge base pair family.

Sponer JE, Spacková N, Kulhanek P, Leszczynski J, Sponer J.

J Phys Chem A. 2005 Mar 17;109(10):2292-301.

PMID:
16838999
[PubMed - indexed for MEDLINE]
15.

Principles of RNA base pairing: structures and energies of the trans Watson-Crick/sugar edge base pairs.

Sponer JE, Spackova N, Leszczynski J, Sponer J.

J Phys Chem B. 2005 Jun 9;109(22):11399-410.

PMID:
16852393
[PubMed - indexed for MEDLINE]
16.

Frequent occurrence of the T-loop RNA folding motif in ribosomal RNAs.

Nagaswamy U, Fox GE.

RNA. 2002 Sep;8(9):1112-9.

PMID:
12358430
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Sugar edge/sugar edge base pairs in RNA: stabilities and structures from quantum chemical calculations.

Sponer JE, Leszczynski J, Sychrovský V, Sponer J.

J Phys Chem B. 2005 Oct 6;109(39):18680-9.

PMID:
16853403
[PubMed - indexed for MEDLINE]
18.

Sequence and structural conservation in RNA ribose zippers.

Tamura M, Holbrook SR.

J Mol Biol. 2002 Jul 12;320(3):455-74.

PMID:
12096903
[PubMed - indexed for MEDLINE]
19.

NCIR: a database of non-canonical interactions in known RNA structures.

Nagaswamy U, Larios-Sanz M, Hury J, Collins S, Zhang Z, Zhao Q, Fox GE.

Nucleic Acids Res. 2002 Jan 1;30(1):395-7.

PMID:
11752347
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Analysis of RNA motifs.

Leontis NB, Westhof E.

Curr Opin Struct Biol. 2003 Jun;13(3):300-8. Review.

PMID:
12831880
[PubMed - indexed for MEDLINE]
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