A model for the solution structure of a branched, three-strand dna complex

Neocles B. Leontis; Michael T. Hills; Martial Piotto; Arun Malhotra; Jean Nussbaum; David G. Orenstein

doi:10.1080/07391102.1993.10508722

A model for the solution structure of a branched, three-strand dna complex

Neocles B. Leontis, Michael T. Hills, Martial Piotto, Arun Malhotra, Jean Nussbaum, David G. Orenstein

Research output: Contribution to journal › Article › peer-review

30 Scopus citations

Abstract

The solution structure of a DNA three-way junction (TWJ) containing two unpaired thymidines was elucidated using two-and three-dimensional !H nuclear magnetic resonance (NMR) spectroscopy. TWJs with unpaired nucleotides are ubiquitous structural motifs of complex single-stranded nucleic acids. In the presence of Mg2+. the TWJ complex adopts a unique conformation in which the bases of one of the oligonucleotides (“strand 1”) are continuously stacked across the junction. Guanosine 8 of strand 3(S3-G8), which pairs with S1-C5. stacks on S2-G5, which is paired to S1-C6. The unpaired thymidine bases (S3-T6 and S3-T7) are exposed to the solvent, whereas the sugar of S3-G8 is largely buried. S3-T6 also interacts with the sugar residue of S3-G11. All three stems conform to B-type DNA.

Original language	English (US)
Pages (from-to)	215-223
Number of pages	9
Journal	Journal of Biomolecular Structure and Dynamics
Volume	11
Issue number	2
DOIs	https://doi.org/10.1080/07391102.1993.10508722
State	Published - Oct 1993
Externally published	Yes

ASJC Scopus subject areas

Structural Biology
Molecular Biology

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title = "A model for the solution structure of a branched, three-strand dna complex",

abstract = "The solution structure of a DNA three-way junction (TWJ) containing two unpaired thymidines was elucidated using two-and three-dimensional !H nuclear magnetic resonance (NMR) spectroscopy. TWJs with unpaired nucleotides are ubiquitous structural motifs of complex single-stranded nucleic acids. In the presence of Mg2+. the TWJ complex adopts a unique conformation in which the bases of one of the oligonucleotides (“strand 1”) are continuously stacked across the junction. Guanosine 8 of strand 3(S3-G8), which pairs with S1-C5. stacks on S2-G5, which is paired to S1-C6. The unpaired thymidine bases (S3-T6 and S3-T7) are exposed to the solvent, whereas the sugar of S3-G8 is largely buried. S3-T6 also interacts with the sugar residue of S3-G11. All three stems conform to B-type DNA.",

author = "Leontis, {Neocles B.} and Hills, {Michael T.} and Martial Piotto and Arun Malhotra and Jean Nussbaum and Orenstein, {David G.}",

note = "Funding Information: Biochemical Magnetic Resonance Center, where most of the spectroscopic work was carried out, is supported by the NIH designated AIDS Research Center at Pur-due (grant AI727713 to DGG) and by the NSF Biological Facilities Center on Biomolecular NMR, Structure, and Design at Purdue (grants BBS 8614177 and 8714258 to DGG from the Division of Biological Instrumentation). NBL and A1vl acknowledge the encouragement and support ofProfessorStephen C. HaiVeyin the modelling studies. Funding Information: This work was supported by U.S. Public Health Service Grants GM4l454(to NBL), AI27744 (to DGG), and GM34015 (to Stephen C. Harvey); by Ohio Board of Regents Research Challenge grants, by Petroleum Research Fund Grant 20871-GB4, and by Research Corporation Grant C-2314(to NBL). The Purdue University",

year = "1993",

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doi = "10.1080/07391102.1993.10508722",

language = "English (US)",

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journal = "Journal of Biomolecular Structure and Dynamics",

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T1 - A model for the solution structure of a branched, three-strand dna complex

AU - Leontis, Neocles B.

AU - Hills, Michael T.

AU - Piotto, Martial

AU - Malhotra, Arun

AU - Nussbaum, Jean

AU - Orenstein, David G.

N1 - Funding Information: Biochemical Magnetic Resonance Center, where most of the spectroscopic work was carried out, is supported by the NIH designated AIDS Research Center at Pur-due (grant AI727713 to DGG) and by the NSF Biological Facilities Center on Biomolecular NMR, Structure, and Design at Purdue (grants BBS 8614177 and 8714258 to DGG from the Division of Biological Instrumentation). NBL and A1vl acknowledge the encouragement and support ofProfessorStephen C. HaiVeyin the modelling studies. Funding Information: This work was supported by U.S. Public Health Service Grants GM4l454(to NBL), AI27744 (to DGG), and GM34015 (to Stephen C. Harvey); by Ohio Board of Regents Research Challenge grants, by Petroleum Research Fund Grant 20871-GB4, and by Research Corporation Grant C-2314(to NBL). The Purdue University

PY - 1993/10

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N2 - The solution structure of a DNA three-way junction (TWJ) containing two unpaired thymidines was elucidated using two-and three-dimensional !H nuclear magnetic resonance (NMR) spectroscopy. TWJs with unpaired nucleotides are ubiquitous structural motifs of complex single-stranded nucleic acids. In the presence of Mg2+. the TWJ complex adopts a unique conformation in which the bases of one of the oligonucleotides (“strand 1”) are continuously stacked across the junction. Guanosine 8 of strand 3(S3-G8), which pairs with S1-C5. stacks on S2-G5, which is paired to S1-C6. The unpaired thymidine bases (S3-T6 and S3-T7) are exposed to the solvent, whereas the sugar of S3-G8 is largely buried. S3-T6 also interacts with the sugar residue of S3-G11. All three stems conform to B-type DNA.

AB - The solution structure of a DNA three-way junction (TWJ) containing two unpaired thymidines was elucidated using two-and three-dimensional !H nuclear magnetic resonance (NMR) spectroscopy. TWJs with unpaired nucleotides are ubiquitous structural motifs of complex single-stranded nucleic acids. In the presence of Mg2+. the TWJ complex adopts a unique conformation in which the bases of one of the oligonucleotides (“strand 1”) are continuously stacked across the junction. Guanosine 8 of strand 3(S3-G8), which pairs with S1-C5. stacks on S2-G5, which is paired to S1-C6. The unpaired thymidine bases (S3-T6 and S3-T7) are exposed to the solvent, whereas the sugar of S3-G8 is largely buried. S3-T6 also interacts with the sugar residue of S3-G11. All three stems conform to B-type DNA.

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